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Mapping - Science topic

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Where can I download spatial crop type time series maps of India???
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Triambak Baghel , you may browse through the Government of India Ministry of Agriculture and Farmers Welfare website, where, periodical publications, such as: Agricutlure Statistics are available. For instance, the latest data is available at:
Similarly, the state level data can also be accessed from the websites of Agriculture Ministry's websites of respective states of India. These publications are released by the Department of Economics & Statistics of the respective states of India. Hope, this helps.
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I wish to get suggestions on how to use it for lower grade students learning assessment and few examples will help me a lot.
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Hi Deki, Curriculum mapping allows educators to collect and record curriculum-related data that identifies core skills and content taught, processes employed, and assessments used for each subject area and grade level.Best regards
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Is there any free online software to process the fluxomics raw data files.???
1. To calculate 12C and 13C ratio
2. Pathway mapping
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OptFlux3 is open source and "might" be modified to meet your needs.
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I have some gridded data generated with Generic Mapping Tools. these data have .grd extension and are working fine with GMT and Mirone. Whenever I try to import these gridded data in QGIS, it location goes out side the global map area. Its size on the base map also exessively large. How to resolve this problem.
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Hi..
If the problem is not solved yet..you can try converting GMT grid in to some other gdal supported grid format. For example you can use "gmt grdconvert" to import/export through gdal.
Below is an example which converts GMT grid into SURFER grid format using GMT itself.
gmt grdconvert inputgrid.grd -Goutputgrd_sur.grd=gd:GS7BG -V
Then load the surfer grid, ( here 'outputgrd_sur.grd' ) in QGIS and see..
Hope this will work. Also please note.. the extension of both the gmt and surfer grid is ".grd"...!!
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I need tutorial to analyze RNA Seq data in ubuntu Linux and R, and IGV.
I can't run the commands in Ubuntu Linux for alignment of data and mapping of reads. I need the tutorial for running commands in Ubuntu for merge, sort and index my data, and have to use Sam tools, Bam tools, and Bed tools., but I can't run the commands. And also need to RNA Seq data analyzing in R and IGV as well.
Thank you
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Hmm, I'm not entirely sure how to run that myself, but since I lack coding experience I've been using the LatchBio platform. Through their RNA-seq and DeSeq2 workflows, I've analyzed and visualized a lot of the data at my lab. Hope that helps!
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ENVI SARScape 5.1 looks a very useful tool for monsoon flood mapping using Sentinel-1 data, which is one of my research interests. I would be grateful if someone helps me to download and install ENVI SARScape 5.1 (for free if possible). Thank you in advance.
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please follow the link if you are still interesting .
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Hello, I have bam and fasta file with several genomes aligned to each other with mafft. I want for each read and genome to have 3 numbers : number of bases from which match genome, number of reads which don't match genome and whether there is indel (0 if not 1 if there is). How to do it properly?
Thank you in advance!
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  1. I don't think mafft is a right tool for genome alignment.
  2. I have not heard mapping the read to multiple alignment. Or firstly, what reads?
  3. There are several tools available which are used for mapping and it would be helpful if you decide what you exactly want to do and then check the manual of those tools.
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I have around 54K probe IDs from the platform HGU95AV2 of the Affymetrix. I tried bioMart package in R, but got less 1% of the probe IDs mapped. Is there any alternate to specifically map to the HGNC symbols?
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What is the most scientific and appropriate technique for ‘cultural resource mapping‘?
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The process can be achieved through identification of the resources each communities has then link it up to the map of the community to have a thematic map showing the percentage of each of the resources in the communities.
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Science has many unsatisfactory explanations about dreams. Has anyone used quantum field theory to explain dreams? Is there any relation between dream mapping and neuron electric field?
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Hi everybody, thanks for reading me.
I have two different data sets, uneven in terms of number of species. I want to focus my article on Systematics. The first one has 20 plant DNA sequences, and the second set is a morphological matrix with 95 species (including those from the first dataset).
I haven't found good recent examples of publications with 2 phylogenies, a molecular one and a morphological one. Also, I haven't found articles where topologies have significant differences in terms of the number of OTUs.
Colleagues have advised me to just do a mapping of morphological characters on molecular phylogeny, but I don't want to "loose" all my morphological work by excluding many characters which are not worthy to be mapped.
What is the most suitable "publishing strategy"?
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Your question is a bit strange. You are worried about losing morphological data for your DNA sequences. What does that even mean? Data analyses always depends on your research question, which is not clear to me from what you wrote. May be focus on asking the right type of questions and developing the hypotheses first, and your manuscript will be publishable anyway.
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I am looking for research proposal topic in UAV , autonomous robotics & swarm robotics. I would like to have more open discussion about these fields.
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Hi Nadeem Ahmed,
First if you are not familiar with SLAM, I recommend this article:
Or dig a bit into Prof stachniss youtube channel, you will find very good introduction to SLAM and different approaches to solve it: https://www.youtube.com/c/CyrillStachniss/videos
I give you here an excerpt of a paper I wrote on that topic ( )
It is common to separate the SLAM into two stages: the front-end which is
extracting features from the raw data and performs matching (scan-matching,
feature-based matching) between two consecutive maps in order to compute
a relative displacement (odometry) and the back-end which is building the map, detect loop-closures and compute the state estimation. These two stages run at
different rates, the front-end in the 20Hz-40Hz range while the back-end is
in the 5Hz-10Hz range. Lot of research has been done to increase both performance and robust-
ness of SLAM the last two decades and for an depth description of SLAM
algorithms please refer to [28]
Lidar SLAM system
As mention in section 3.2 Lidars have very attractive properties but they are
expensive and heavy, therefore there are not so many SLAM that have been
tested with MAV, among them the most famous are:
- HectorSlam [36] :It combines a robust scan matching approach using
a 2D-LIDAR system with a 3D attitude estimation system based on
inertial sensing. By using a fast approximation of map gradients and
a multi-resolution grid, reliable localization and mapping capabilities
in a variety of challenging environments are realized. The authors
claimed that because HectorSLAM is fast, loop closure is not necessary.
Athough it is true in very structured indoor environments, if there is
not enough ”landmarks” such walls and corners, one can observe drifts
in the computed (x,y, yaw) pose;
- LOAM [65] Which is composed of two algorithms. One algorithm per-
forms odometry at a high frequency but low fidelity to estimate veloc-
ity of the lidar. Another algorithm runs at a frequency of an order of
magnitude lower for fine matching and registration of the point cloud.
Combination of the two algorithms allows the method to map in real-
time
Frame cameras
As the computational resources are limited on a MAV, only sparse visual
SLAM are considered. sparse SLAM systems use only a small selected subset
of the pixels in an image frame. The maps generated from sparse methods
are basically points clouds, which are a coarse representation of the scene
and mainly used to track the camera pose (localization). The most popular
are:
•ORB-SLAM (monocular only) and ORB-SLAM2 (Monocular, stereo
and RGB-D) [49]. ORB-SLAM2 uses ORB features because of the
speed in which these can be extracted from images and their rotational
invariance. ORB-SLAM2 is composed of three threads: Tracking, local
mapping and loop closing (it has embedded a Place Recognition module
based on DBoW2 [17] for relocalization and loop closure).
Regarding monocular camera, the only possibility to extract a depth map
and compute the state estimation of MAV is to implement a Visual-inertial
Odometry (VIO) algorithm. Lot of research has been done in the recent
years and the field has reached a level of maturity such that many commercial
products now utilize proprietary VIO algorithms, and there are several open-
source software packages available that offer off-the-shelf visual pipelines that
can be deployed on an end-user’s system of choice. Here are the main VIO
pipeline which can be implemented :
•MSCKF - an extended Kalman Filter (EKF) orginally proposed in [48],
but with many subsequent variations;
•OKVIS [38] - a keyframe- and optimization-based sliding window esti-
mator using landmark reprojection errors;
•ROVIO [1] - an extended Kalman Filter with tracking of both 3D land-
marks and image patch features;
•VINS-Mono [53] - a nonlinear-optimization-based sliding window esti-
mator using pre-integrated IMU factors;
•SVO [15] + MSF [46] - a loosely-coupled configuration of a visual odom-
etry pose estimator and an extended Kalman Filter for fusing the visual
pose estimate with the inertial sensor data, as proposed in [9];
•SVO+GTSAM [14] - a lightweight visual odometry frontend with a
full-smoothing backend provided by iSAM2 [30]
[28] Baichuan Huang, Jun Zhao, and Jingbin Liu. A survey of simultaneous
localization and mapping. ArXiv, abs/1909.05214, 2019.
[36] Stefan Kohlbrecher, Oskar von Stryk, Johannes Meyer, and Uwe Klingauf. A flexible and scalable slam system with full 3d motion estimation.
2011 IEEE International Symposium on Safety, Security, and Rescue
Robotics, pages 155–160, 2011
[65] Ji Zhang and Sanjiv Singh. Loam: Lidar odometry and mapping in
real-time. In Robotics: Science and Systems, 2014
[49] Ra´ul Mur-Artal and Juan D. Tard´os. ORB-SLAM2: an open-source
SLAM system for monocular, stereo and RGB-D cameras. IEEE Trans-
actions on Robotics, 33(5):1255–1262, 2017
[17] Dorian G´alvez-L´opez and J. D. Tard´os. Bags of binary words for fast
place recognition in image sequences. IEEE Transactions on Robotics,
28(5):1188–1197, October 2012
[48] Anastasios I. Mourikis and Stergios I. Roumeliotis. A multi-state con-
straint kalman filter for vision-aided inertial navigation. Proceedings
2007 IEEE International Conference on Robotics and Automation, pages
3565–3572, 2007
[38] Stefan Leutenegger, Paul Timothy Furgale, Vincent Rabaud, Margarita
Chli, Kurt Konolige, and Roland Siegwart. Keyframe-based visual-
inertial slam using nonlinear optimization. In Robotics: Science and
Systems, 2013.
[1] Michael Bloesch, Sammy Omari, Marco Hutter, and Roland Siegwart.
Robust visual inertial odometry using a direct ekf-based approach. In
IROS 2015, 2015
[53] Tong Qin, Peiliang Li, and Shaojie Shen. Vins-mono: A robust and
versatile monocular visual-inertial state estimator. IEEE Transactions
on Robotics, 34:1004–1020, 2018
[15] Christian Forster, Zichao Zhang, Michael Gassner, Manuel Werlberger,
and Davide Scaramuzza. Svo: Semidirect visual odometry for monocular
and multicamera systems. IEEE Transactions on Robotics, 33:249–265,
2017
[14] Christian Forster, Luca Carlone, Frank Dellaert, and Davide Scara-
muzza. On-manifold preintegration for real-time visual–inertial odome-
try. IEEE Transactions on Robotics, 33:1–21, 2017.
[46] Simon Lynen, Markus Achtelik, Stephan Weiss, Margarita Chli, and
Roland Siegwart. A robust and modular multi-sensor fusion approach
applied to mav navigation. 2013 IEEE/RSJ International Conference
on Intelligent Robots and Systems, pages 3923–3929, 2013
Hope that help
Fabrice
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Kia ora,
I'm a newbie to using the QGIS mapping program and have no idea how to find the appropriate CRS for the NE Atlantic, or rather the Iceland-Faroes-UK section; even the Iceland-UK-Biscay-Iberia sector. It may require alternatives according to the specific area of focus, I assume.
Any help gratefully received.
Graham.
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Thank you Ola and Jens. QGIS is very daunting after having used PANMAP.
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Hi
I have 3 robots and I know the starts and end coordinate of each of them. For example for Robot 1 I have Xr1, Yr1 and Xr2,Yr2 coordinates pair , same for Robot2 and 3. I have lateral cameras so can obtain the visual information. I would like to get the robot-to-robot relative position over time. The camera update is every 0.5 seconds. How can I approach this problem and any possible solution? Is the Hidden Markov Model chains would be a good approach? OR semantic Mapping can be helpful?
Thanks
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With the development of computer technology, deep learning is gradually applied to the field of image recognition. It can deal with two-dimensional image data naturally and extract features automatically. Compared with the traditional machine learning methods, deep learning is popular for its good learning ability and low generalization error.
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Dear, I am done a landslide susceptibility zones. I want to validate it with RMSE. As mentioned I took 398 observations to do RMSE in R. My result is 1.01
Can I use the result?
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Surely you can but you have to justify it at the end.
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How to derive data for calculation of Tolerance (TOL) and Variance Inflation Factor (VIF) for hazard mapping?
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Istak Ahmed You can easily use the Logistic Regression tool in SPSS to calculate TOL and VIF. Multicollinearity for hazard mapping would only require the independent variables (single outcome eg. flooding, landslide, wildfire, etc); calculating VIF and TOL in this case has nothing to do with the dependent variable. However, using the logistic regression tool in SPSS requires an input of the dependent variable which cannot be one value (single outcome). A workaround is to just create dummy values (eg. simple arithmetic sequence like 1, 2, 3, 4...) for the dependent variable and only focus on the results of VIF and TOL. Ignore the other statistics since they are incorrect.
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I have all the data regarding landslide susceptibility mapping, and I want to analyze the data by using the logistic regression model, but still, I have no idea how to process it.
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Following my experience, if your maps are in the format of shape-file (boundary maps) you can transform it into a raster file (grid format). Then with this data structure, you can use the R program for logistic regression.
My paper in topic "Logistic Regression Model of Built-Up Land Based on Grid-Digitized Data Structure: A Case Study of Krabi, Thailand" was explained on it.
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Is the use of open source airborne geophysical data scientifically correct to make a research paper? Are these data accurate? Like data available in U.S. Geological Survey (USGS)?
This question came to my mind as a result of a problem that occurred in the presentation of the open source airborne geophysical data from U.S. Geological Survey by using Geosoft software, I do not know if it is really a problem or not, it is about the range of values appear in the grid properties and the displayed legend bar, as the range of values ​​for the eU map is much larger than the actual range values ​​of the eU channel in the database. What can I do to display the correct range of radiometric values?
I tried to solve this problem by setting the Maximum and the Minimum values while mapping the grid with these steps:
Grid and Image > Display > Grid > More > Maximum Value = 4.6, Minimum Value = 0
After that when displaying the legend bar and choosing post-end values, the maximum value becomes very large, and the minimum value becomes negative.
The actual max value is 4.6 ppm and the min is zero.
This problem also appears in the eTh map, where the actual range of values ​​is from 13.2 ppm (The maximum value) to zero (The minimum value).
I want to make sure that, these steps are scientifically correct or not?
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The answer to your fundamental question is yes. Your discussion points to a problem with the USGS. I believe common practice is for scale to show the maximum and minimum of the utilized and mapped data.
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can anyone help me in doing Bias correction such as Quantile mapping using climate data in python ?
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Agatambidi Balakrishna Have you performed the bias correction? How did you proceed with the given code above? Could you explain to me elaborately?
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Hi, I would like to make a paf file without repeating the reads being mapped to the sequence, like the --no-split option in mashmap, but I can't seem to find it on minimap2 option. Anyone knows how?
Thanks!
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Hi
I have heard researchers mentioning the use of regression in bibliometrics. Could anyone kindly help answer this
Regards
Chithra
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GWR, Geographically Weighted Regression has been used in GIS to understand the relationship between dependent and several independent variables including the geography of the enumeration units. The method provides regression coefficients that vary depending on the Geographical location. One can take spatial autocorrelation into account. GWR can be performed in ArcGIS. If you don't have that software you can download GeoDa free and do a spatial regression. The software was developed by Dr. Luc Anselin
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I have a data set consisting of GPS based species locations and would like to use it for mapping Rangeland plant species distribution. I humbly request anyone with a clear protocol I can follow.
Thanks
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I wonder if it can help you,because I have made a system for locating animals based on Beidou.
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Hello Guys;
I came across these methods in articles of the Iranian authors is related to mineral prospectivity mapping with remote sensing; TOPSIS and VIKOR methods like AHP and Fuzzy Logic same as in Arcmap so when I asked an author of an article, how can I perform these methods he gave me answer that he used matlab.
I am looking for answers about this subject;
Fuzzy and AHP is already in ArcGIS but What can I do for TOPSIS and VIKOR methods in Matlab? and How to use Matlab for mapping?
And second question;
How can I develop a mineral prospectivity mapping method/model in which programming language?
I have to work with raster datasets I think.
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The VectorMCDA add-on of QGIS, an open source GIS software, enables the TOPSIS application for non-coders
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About research on weak compatibility of type p on Menger metric space
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i am interested too.
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Hello, everyone!
I want to know is there any method for crop type mapping using hyperspectral sensors without samples?
Thanks,
Mehrnoush
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Anyone know why the DEGs are different when RNA-seq results mapped to genome vs transcriptome?
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James Y. M. Tang Genomics examines the entire set of genetic instructions supplied by DNA, whereas transcriptomics investigates gene expression patterns.
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As per datasheet of AD4111 I cannot make the interface mapping for AD4111 to FPGA If any helps come it will be good for my recent project.
Register mapping will be more helpful.
#embedded_systems #VHDL #electronics #fpga #adc #spi
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Caprio Mistry The SPI bus is a full-duplex synchronous serial interface data bus with minimal signal lines, a simple protocol, and a rapid transmission speed. Parallel high-speed computing using FPGA is utilized to satisfy device growth and experiment in high-rate settings based on these properties.
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Hi all. I want to create mapped mesh ( same nodes on opposite sides mapped and aligned with each other) for different geometry on opposite surfaces of a cuboid in y direction (top and bottom surface are having different features ) as shown in two figures ? Any help will be appreciated. Thanks all.
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Devorshi Bhattacharjee Under COSMOL, in the Mesh ribbon toolbar (Windows), select Mapped from the Generators>Boundary () option. Choose Mapped from the Boundary menu () (3D components) from the Mesh contextual toolbar (macOS and Linux) or click Mapped (2D components). Mapped may be selected by right-clicking a Mesh node.
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Hi all,
I am working on a satellite mapping project of thermokarst lakes in Eastern Siberia. I have satellite images which span the early 1960s -2019 and daily meterological data (temp and precip) from 1900-2019.
I would like to know if there is any statistical correlation between changes in lake surface area and temperature and precipitaiton.
There is a trend of increasing temperature and precipitation since 1900 (Mann-Kendell test), but there is of course quite a lot of yearly varaibility. Anecdotally, there are several years of substantial lake area increase which are preceeded by years of above average temperature. Is there any way to consider evaporation rates as well?
Thank you so much in advance for any suggestions.
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I am trying top prepare pseudogenome alignments from VCF file after mapping reads to reference genome. I yried to use python script for that but it does not work. I was wondering if anybidy here has bash script to prepare pseudogenome alignemnts.
Thank you.
Krishna
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Krishna Prasad Acharya Mapping an experiment's reads to a reference genome is a critical step in current genomic data interpretation. With mapping, readings are given to a specific site in the genome, and information such as gene expression levels may be obtained.
Take a look as well: https://nf-co.re/bactmap
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Greetings,
I'm doing a project on bioinformatics. I was given reads from 8 animals from two populations (4 cows from a cold environment and 4 cows from a hot environment). I mapped these reads, run quality controls and called SNPs and annotated them using SnpEff eff.
Now I have an annotated VCF file with genes and their corresponding SNPs. I'm looking for an efficient method to identify genes that have an effect on adaptation to cold and hot environments. I tried running Gene Ontology with pantherdb, but I can't interpret the results very well.
I would appreciate any suggestions of how more established researchers approach this problem. Any suggestions for papers or reviews on methodologies are also very much appreciated.
Thank you!
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The following RG link is also very useful:
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I would need ideas and examples for suitable models or frameworks for mapping money flows within a region. Input-output analysis works at industry level, while I am searching for tools to map individual, focal firm level money flows, perhaps constructing a network map. It should assist in visualizing the degree of interconnectedness among the actors, as well as the volume of monetary transactions. So far the examples I've found have bee related to tourism & catering and construction business, nonetheless with less robust methodology. What would be the state of the art approach in doing such analysis?
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Hi there,
I performed Raman mapping with a Thermofisher DXR spectrometer. How to export the mapping data? In addition, I would like to ask you some suggestions concerning the plotting: how to plot correctly this kind of data?
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You can extract the intensity of the Raman peaks that you interested of the mapping data. Then build a matrix using the intensity data. Each unit of the matrix corresponds to the pixel of the mapping. Finally, redraw the matrix image and adjust the scale to suit the actual material size.
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I want to do solution mapping from the previous iteration to the next iteration in the Abaqus. Is it possible to do with inbuilt functions?
This mapping should work for the old mesh in the previous iteration to the new mesh in the next iteration .
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Thank you!
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Only empirical studies can be included for conducting bibliometric analysis or review papers can also be added?
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I think it depends on your research question. If you are exploring general research trends in the past literature, there is no harm in including review articles. However, if you aim to conduct a bibliometric analysis of only empirical studies then you need to exclude the review and conceptual articles from the study. It is your research and you have the right to set the objectives as long as they are justifiable.
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How can we map or analyse the real time flood inundation mapping?
Many hydrodynamic modelling needs validation . However, due to lack of data, it could not be more accurate/precise. If we could know the actual/real time flood map, it would be overwhelming and efficacious approach to validate the model which can be helpful for decision makers and disaster authorities.
Thanks.
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Use Google Earth Engine platform
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I use some mind map applications, but lately, most of the applications charge a fee. Therefore, if you suggest free mind map and concept map applications that you know, I would really appreciate it.
Sincerely
İlker
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Next, you may check this post for some other software solutions:
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Good afternoon,
I am currently working in mapping trace elements in a worldmap using RStudio, I am very interested in finding RStudio packages which allows me to use geological databases in a Martian geological map. I will appreciate it a lot if someone could tell me about any interesting RStudio packages for this purpose.
Thanks in advance,
Cristian Ramírez Rodríguez
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These guys would know. They are very helpful. ( https://jmars.mars.asu.edu/ ). And, BTW, Google Scholar is your friend. The current Martian data isn't any different than any other GIS data, in ArcGIS, QGIS, or R. The way older stuff has weird formats. All the dta in the Planetary Data System (PDS) ( https://pds.nasa.gov/ ) and elsewhere ( https://nssdca.gsfc.nasa.gov/ )is really well documented.
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I need to map 8 states of India for evolutionary aspect of a crop.
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Dear Rubekka
For Beginners: ArcGIS or QGIS. It better to have both in your kitty. To have an idea of diffrence betwn QGIS and ArcGIS see the attached figure.
For Avanced level: R, Python (Programming software) and Google Earth Engine (Free Geospatial Cloud computing platform offered by Google).
All the aforementioned are widely used in academia as well as in industry for mapping and spatio-temporal analysis. You may choose any one based on your requirements.
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I have built a task scheduling algorithm in MATLAB. I am currently working on task scheduling optimization in fog computing. I have created the physical components, logical components(application modules) and also mapped the modules to the physical devices in iFogSim. But how to actually run these modules and call the scheduling algorithm from MATLAB to iFogSim.
Any help is really appreciated.
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What method of mapping is best good for Rock mass rating
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Rock Mass discontinuity field mapping
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How to perform sensitivity analysis for dam/reservoir site suitability mapping? if we have considered some parameters (i.e. elevation, slope, distance to the river, geology, geomorphology). So, by using AHP we have done overlay analysis in Arc GIS to develop a suitability map. However, if the dam or reservoir is not constructed, how we can validate the model/resulted maps.
Thanks
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In my perspective, I think the term sensitivity analysis is more appropriate to use in mathematical models such as HecRAS, SWAT etc.
In case of AHP based overlay analysis, this is knowledge based modeling, and depends on the expert judgement.
In order to reduce the no of factors, one may use statistical techniques such as PCA or cluster analysis.
Regarding, validation in such as scenario, only one may propose various sites and let the field observations validate their suitability.
It is simply, throwing an arrow in dark but with sound scientific and rational judgement.
Thanks
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Hello,
I am currently doing research that finds the applicability of Landsat 8 satellite images for Soil Salinity Mapping.
01) In order to do that I generated a few soil salinity indexes based on a few methods such as NDSI, VSSI, etc.
02) As the second step, I generated the actual soil salinity map by collecting samples and interpolating that sample points.
Now I have a problem about what is the best way to find the correlation between 2 raster images?
Can I use Fishnet in ArcGis and generate points for each pixel and then use Microsoft Exel or Python to generate the correlation or are there any other methods to find that correlation?
Please be kind enough to enlighten me if You know any methods, thank you.
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As recommended by Mohammed el Hafyani, you can use Spatial Analyst ->Band Collection Statistics tool in ArcGis. You could also add SDMTools box to ArcGIS.
In R, you may use :
corLocal(raster1, raster2, method=c("pearson", "kendall", "spearman")
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Are there any iPad pro apps for GIS mapping and analysis? Thanks
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Dear Jens Kleb Antônio Carlos Pereira dos Santos Junior Omid Vakili , for precision monitoring I use an emlid reach rs2+ GNSS antenna and its app is well supported by apple so this doesn't worry me. My basic idea is to use the iPad as if it were a topographic map on which to digitize with the pen in the field or in the laboratory the various shapes obviously geo-referenced and using as a base map a topographic map in ecw format, export in shape format and load everything into my beloved QGis, but taking full advantage of the potential of the apple pencil. Is this possible? I must also admit that I am a big fan of global mapper. Regards
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Dear colleagues,
I am looking for software for Systems mapping and Causal loop diagrams. It would be wonderful if any of you with experience in this could share some information.
Have you used any? Any advice or feedback? Pros and cons?
Thanks in advance,
Fabio
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You can look at these pages.
The focus in more on computation than just representation, though.
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I'm working with genotype-by-sequencing data. I have output a VCF file with the SNP calls, but in order to perform analyses, like trait mapping, I need to have the SNPs listed out in ACTG format (i.e. with the distinct calls for each locus in each individual). I'm having trouble finding a method (preferably in R) to do this.
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I have whole genome sequence (in fasta format) of a non-model organism. How can I map RNAseq raw reads against this sequence?
Can anyone please suggest me any literature regarding the creation of gtf file?
TIA.
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Kindly go for de-novo analysis as in the case of non-model organism reference-based analysis is clearly different. I would suggest you kindly read Trinity RNASeq de-novo Assembly.
Cheers.
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Hi, I am planning to probe the surface potential distribution at a contact junction between two kinds of materials. The kelvin probe force microscopy and AFM-IR microscope can probe the surface potential in the air. I was wondering if these techniques could still work in an aqueous sample? Or any other technique could be an alternative?
Thanks!
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this article v. important
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Hi Folks,
Have you investigated publications associated with COVID-19 host risk factors and immunopathogenesis related research?
We are all aware that SARS-CoV-2 infection and disease risk factors are complex, resulting in widely varying outcomes, ranging from asymptomatic to severe illness, and death. To be able to evaluate one's own risk related to COVID-19, multiple contributing factors must be considered, including the well known and frequently discussed risk factors of old age, obesity, diabetes, social circumstances, environmental circumstances, and other commonly described co-morbidities along with SARS-CoV-2 variant behaviors. However, the well known and openly discussed risk factors are insufficient to explain the widely varying outcomes of SARS-CoV-2 exposure. Therefore, in the commonly used public domain information sources, some information is missing concerning additional, lesser discussed, but potentially critically important risk factors. It is clear to me that there is no single factor that can determine any particular individual's risk, therefore more information is needed to aid in risk assessment. In no way is this information outcome deterministic, and only represents additional statistical factors to consider when assessing one's own risk to exposure to SARS-CoV-2.
Well, I recently started looking into some of this research, and I would like to share some research that I think could be very important, and ultimately shed some more light on COVID-19, human host immunopathogenesis, and risk. Some of these papers summarize and evaluate research, performed by others, on various host factors that may be additional indicators of SARS-CoV-2 infection and associated disease severity risk. I have included links to articles, preprints, and studies so that we all can be aware of established and up and coming research. All of these articles are open and freely available to the public. I have also included a link to the Wikipedia website on global blood type distribution as a general reference. Do you know your blood type?
I am providing this information to you in the role of a Pure Scientist as described by Rojer A Pielke Jr. in his book titled "The Honest Broker: Making Sense of Science in Policy and Politics." I let you interpret the information and decide on its importance and relevance.
Please feel free to comment on this research.
Sincerely,
Allan Haas, PhD
Article Mapping the human genetic architecture of COVID-19, https://www.nature.com/articles/s41586-021-03767-x
Study COVID-19 Genetics Publications https://www.covid19hg.org/results/r6/
Pielke Jr, R.A., 2007. The honest broker: making sense of science in policy and politics. Cambridge University Press.
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although I have take the courses of SSP but still I am not being able to understand how the crystal directions are mapping the unit cell atoms in the crystal along x y and z directions. I want to hear the discussion from an expert.
kindly check the attached figure
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Hi everyone
How can I count mapped RNA-seq reads using linux?
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You can get counts using featurecounts, htseq and other tools.
Detailed help is available in the tool manuals.
Thank you
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Looking for a 3D Soundscape mapping/modelling tool for outdoor environment, ex. Park etc. Preferably, open source tool.
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At the moment, most of the researchers are mapping soundscape perception responses, which is possible through GIS tools like ArcGIS, QGIS and so on.
You can find more information in the following papers:
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Conformal mapping is a powerful tool to solve 2D boundary value problems that would would otherwise not be able to be solved analytically
Have these ideas been extended to 3D applications? Can someone point me to a suitable reference?
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A conformal map is a function in mathematics that preserves angles but not necessarily lengths locally. In more technical terms, let and be open subsets of At a location, a function is said to be conformal (or angle-preserving) if it retains angles between directed curves while also retaining orientation.
the conformal map, A transformation of one graph into another in which the angle of intersection of any two lines or curves remains constant. The most prominent example is the Mercator map, which is a two-dimensional depiction of the earth's surface that includes compass directions.
In contrast, if the Cauchy-Riemann equations are met and the derivative at the point is not zero, one may demonstrate that there is an a > 0 and such that the above is true. As a result, the map retains angles. As a result, a map is a conformal map if and only if it is a one-to-one, onto analytic function of D to D.
In addition, have a look to these links also:
Kind Regards
Qamar Ul Islam
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I have worked on RUSLE model and collected all the required data from flied survey and lab analysis.
But now I am stuck in Data validation process.
Please suggest the procedure to do it.
Thank you
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Used gem 5 to execute irregular mesh topology. but unable to remove the links .
Can application mapping be performed in irregular noc using noxim simulator?
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Originally, Noxim supported only mesh topology.
In below Reference** , authors present an enhanced Noxim Simulator that implemented other NoC topologies such as mesh, torus and twisted torus topologies.
**K. Swaminathan and D. Thakyal and S. G. Nambiar and G. Lakshminarayanan and Seok-Bum Ko, “Enhanced Noxim simulator for performance evaluation of network on chip topologies,” in Recent Advances in Engineering and Computational Sciences, 2014, pp. 1–5
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Hello,
I am new in this field. I am doing metagenome analysis with shotgun reads. All reads are single ended. DNA was obtained from airways of human. I just want to find taxon abundances in the samples. Then I will predict the diversities and core microbes.
My mapping results are terrible. How can I handle bad mappings?? OR should I change the tools that I used the analysis?? Which tools are more accurate or sensitive for microbiome analysis?? I need any suggestions, please!
I followed this pipeline:
  1. Assembly was done using Megahit
  2. Short contigs (<200 bps) were removed using prinseq
  3. Read mapping against contigs was performed using BWA
  4. Similarity searches for GenBank, KEGG, , eggNOG were done using Diamond
  5. Binning was done using MaxBin2
You can find my mapping results in the attachment.
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Dymphan Gonsalves Thank you very much, your answer is very helpful.
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Phylogenetic, diversity, Synteny mapping, PCA, etc
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Dear Ajay,
Please read this article and it will help you more.
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Mapping of surface water-Bodies area using Geo-Spatial Technology- a case study of Godavari delta.
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Dear both of them MNDWI, WRI is good to use
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I am looking for an advisor to help me in my PhD dissertation in "crop mapping field of climate change conditions.
Do you accept my offer?
please send me your relative researches?
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Is there any tool that can account for systematic literature reviews, systematic mapping reviews, along side other quantiative methodologies such as meta-analysis? like a tool that encompasses all the common research methodologies? and is web based too ?
For instance, there is Nvivo for SLRs..
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Okay, so I've received no good answer to this question and that implies that a comprehensive software that support researchers with their various research methodologies does not exist.
Of course Nvivo and SPSS, and some other ones do exist, but usually for one research methodology ( Nvivo mostly for systematic literature reviews )
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Hi,
I performed ATAC-seq and found a relatively large number of mitochondrial reads under certain conditions. Under other conditions, mitochondrial reads are 20-30% of mapped reads, whereas, in one condition, mitochondrial reads are 60% of mapped reads. Since all 4 replicates have the same results, it does not seem to be a problem in experimental performance.
Usually, ATAC-seq is analyzed after mitochondrial reads are removed, but if there are a lot of mitochondrial reads under certain conditions, could this cause a problem in the analysis?
Or does the difference in mitochondrial read have any biological significance? (like a number of mitochondria, function....)
Does anyone know of any published research that has similar issues?
All suggestions are welcome, thank you.
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Soojeong Chang The amount of mitochondria in a cell is determined by its function. Muscle cells and other cells with high energy demands contain more mitochondria than other cells. The mitochondria's primary function is to provide energy for cellular activity through the process of aerobic respiration.
When a cell's energy requirements grow, mitochondria expand. As a result, cells that require more energy have more mitochondria than cells that require less energy. For example, continually activating a muscle cell will cause it to produce more mitochondria in order to meet energy demands.
However, The current method of choice for mtDNA copy number measurement is quantitative real-time PCR (qPCR).4 Alternative techniques of assessment include next generation sequencing21, microarrays22, and, most recently, droplet digital PCR23.
Kind Regards
Qamar Ul Islam
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I have observed there is a similarity in the formulation of contraction mapping and the condition for a function to be called a Lipschitz function. I have also come across the statement that the smallest value of the constant in a contraction mapping is termed as the Lipschitz constant. Is there any other connection between the two that I am missing ?
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Two main differences:
1) A Lipschitz function f is defined from a metric space (X,dx) to another metric space (Y,dy) (i.e X and Y may be different) while a contraction maps a metric space onto itself;
2)The constant K is just a positive real number for a Lipschitz function but for a contraction K must satisfy 0<K<1.
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For this Al-10%Si alloy, I have tried to get the as-cast EBSD IPF mapping with normal hand-polishing. But on electropolishing with 10% Perchloric acid-90% ethanol solution at 15V, 20V, 25V, 40V for 10-15secs each the sample surface is getting etched but not polished, i.e., there is a height difference between the eutectic Si particles and Al phase.
Hence, what solution would be a better replacement to get a reasonable EBSD mapping??
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I don't think there is electrolytic procedure so far that will uniformly electropolish both Al matrix and Si particles. The procedures you have mentioned are polishing only Al matrix so it looks like etching. Careful mechanical polishing and/or ion polishing if you have access to it may be easiest way to get good EBSD patterns.
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We want to estimate the canopy volume of trees by 3D mapping using the LiDAR sensors. Please suggest low-cost LiDAR sensors available in India for 3D mapping.
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PhoDar (photogrammetry) or SFM (structure-from-motion) is usually cheaper than LIDAR and can also generate point clouds. I suppose what really counts is the level of accuracy that your task requires. https://www.esri.com/events/transmission-summit/~/media/A36CC282BBCA42ABB06F527A648DF5E6
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Dear all, I finished writing a manuscript on Forest Fire Mapping using GIS. I would like to send it for publication in a peer reviwed journal. Can anyone recommend which journal I can go for publishing the manuscript? Kindly don't suggest predatory journals.
Thank you
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Some SCI-Expanded journals that you may consider:
International Journal of Applied Earth Observation and Geoinformation
GIScience & Remote Sensing
Geocarto International
Geo-spatial Information Science
Journal of Spatial Science
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In the matini official website, On matini's website, many lipids don't have mapping files. And i want to edit a mapping file for a lipid molecular by myself, could you help me to solve the problem?
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Please any one who can tell me the best software for mapping the sampling area with its description. I need free software to indicate my sampling area from the map on my manuscript.
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QGIS is a free download and good tool for map design purposes.
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Specifically, I am interested in learning more about the bedrock mapping near the town of Brassar.
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I would first start with OneGeology, it is a global geologic map that is supported by many national and state geological surveys - www.onegeology.org
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Hi all,
I have the following two questions:
1) Is the set of all natural numbers uncountable or Cantor's diagonal method is incorrect?
Let’s rewrite all natural numbers in such a way that they all have infinite number of preceding 0s. So 1 can be rewritten as …0001.
Then all the numbers can be enumerated as follows:
1 - …0001
2 - …0002
Applying Cantor’s diagonal method (for simplicity let’s do it from right to left), a number that does not appear in enumeration can be constructed, thus proving that set of all natural numbers is uncountable.
It seems that there is an issue with Cantor’s proof, since it can generate new natural number that does not appear in enumeration, but it should belong to the natural numbers. It seems that the issue stems from the fact that this is an infinite sequence of numbers. Over the first n-steps Cantor’s method generate a new number that does not appear in the first n sequences, but it may appear later. Since the number of natural numbers is infinite, it will take an infinite amount of time to generate it or in other words it can never be generated.
2) Mapping natural numbers to [0,1) interval. Are the set of all natural numbers and the set of all real numbers in [0,1) interval equal in size?
Again, let’s rewrite all natural numbers in such a way that they all have infinite number of preceding 0s as above:
1 - …0001
2 - …0002
Now let’s map all real numbers from [0,1) interval to natural numbers in such a way that digit from decimal position n in real number is a digit with index n-1 of the corresponding natural number:
…0001 - 0.1000…
…0002 - 0.2000…
…000123456789 - 0.987654321000…
Note that this mapping is bidirectional, so every real number from [0,1) can be put in correspondence with one natural number and vice versa, meaning that both sets are equal in size.
Is there an error in the above's logic?
Would appreciate everyone's input.
Thanks!
Bogdan
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Thanks Qamar!
The links you shared are very helpful.
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Is there any standardized open format for storing mobile mapping data?
- Images
- Exteroiur and Interiour Orientation
- Trajectory
- Scandata
- Metadata
Due to the huge amunt of data and single files, a format optimized for data transfer tasks would be useful as well.
Do you know such Formats?
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There are notable supply chains related to traditional and regional products that are still untouched by contemporary progress in supply chain management. The basic problem in SCM for these products lie in the lack of a descriptive reference model to even initiate SC research. Although SC mapping is still in an early stage in terms of design, it has been applied to bring out visualization of processes as well as complete industry SCs. Hence a question has been raised seeking the compatibility of SC mapping approaches for solving SC visualization problem. Do other methods available produce better results in visualization when compared with SC mapping approaches?
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SC mapping remains a good method of visualisation especially in traditional activities characterised by stability and repetitiveness of practices. Also, each modern or traditional activity is characterised by specificities and particularities that are perfectly captured by SC mapping.
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Current consumption and production patterns are increasingly founded in global value chains (GVC). Typically, GVCs are structured in several tiers distributed across countries and including a wide set of activities (design, production, distribution, etc). Given the current situation of industrial development and energy transition, comprehensive assessments are required to understand how supply chains work and where they are located. In this sense, which are the most appropriate indicators for mapping supply chains? According to the high availability of trade data (e.g., from Comtrade database), could the trade performance indicators (e.g., relative trade balance or Balassa index) be suitable for identification of net exporters or importers of commodities within the supply chain under evaluation?
I would appreciate if anyone could shed light on these questions.
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I am trying to implement path tracking for bounded Homotopy method in mapped variables (from infinite to finite). My path tracking does not reach desired point. What could be best way of implementing effect of variable mapping on jacobian and tangent computation inside prediction and correction loop with mapping and un-mapping?
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@Qamar UI Islam, I will look into it.
Thanks
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Hello! I am looking for vegetation data and aerial images for a region of Costa Rica, possibly going as far back as 1998. I have gone through Landview and EarthExplorer but I'm so overwhelmed - half the time I get spotty data or partial images. I'm looking for a resolution of 15m or less. I understand older stuff won't have this resolution but to be honest, even though data from some satellites are supposed to have this resolution, the images show otherwise. I keep getting general advice from colleagues, but when it comes down to it, I can't find what I'm looking for, and I'm hesitant to pay for maps when I am not even sure they will be what I'm looking for. Thanks in advance.
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