Science topic

# Morphometrics - Science topic

Morphometrics are topic devoted to the discussion of methods of quantification and analysis of biological form and shape and its applications to the study of evolution, ecomorphology, quantitative genetics, ontogeny, phylogenetics, anatomy, anthropology and etc.

Questions related to Morphometrics

I need to do a morphometric analysis of a watershed using ARC GIS software. However I am unable to find the morphometric toolbox to perform the analysis. Please advice where can I get the tool box from??

I am working on my Tesis, and I need papers related with morphology and morphometry of cockroaches or any related insect (opthopteroids).

I have 22 character data of different fish

Anyone have the protocol or method how to analyses various morphometric parameter (area, volume, volume of cristae and matrix, volume of inner and outer mitochondrial membrane) from mitochondria from Transmission electron microscope image by using

*imageJ**.*I am interested in determining fish morphometrics by TRUSS network. Now how can I extract length/measurements by PAST software amonglandmarks on fish generated by tpsDig2 software? Can you please guide/recommend me any document/ manual/ link to some tutorial.

Thank you i anticipation.

Dear Researchers!

Greetings!

I want to compare stomatal morphometric characteristics of various species (same family members at altered environments). ANOVA one-way test was applied using SPSS to analyze the variance within and between species subjected to stomata morphometry data. Tukey post hoc statistical significance test was also employed. Further, I would like to perform 'Clustering and Similarity-distance analysis'. Please suggest the procedures and kindly let me know if there is any free version of the software available.

I am looking for a detailed manual that one can follow as a self-teaching guide for measuring nematode morphometric parameters. Similar to architectural blueprints use in constructing buildings.

Hello all,

We are using the Inspire 2 drone/Zenmuse x7 camera to capture aerial videos of cetaceans. From these videos, we extract still images from which we then calculate the length and width of individual animals using a software that calculates morphometric measurements based on the pixel dimensions of the images, the lens focal length, and the height of the drone.

The videos are recorded at 5280x2160 resolution at an altitude of between 45-50 meters, using the DJI DL 50mm F2.8 LS ASPH lens, shutter speed 1/500, 29.97 fps. For some of our images, our pixel dimension appears to be 0.00445 mm/pixel, while in other images it is around 0.0034 mm/pixel (pixel dimensions calculated using a control object). This change in pixel dimension does not appear to be correlated with either the height or the tilt of the drone, and we have tried to camera in both auto-focus and manual-focus modes. We are not sure if this is an issue with the camera settings or a sign of a larger issue, but we would very much appreciate any suggestions as to what might be causing this problem!

Thank you all for your time.

To compare morphometric data of two or more bees.

The parallel drainages are commonly observed over estuarine environments, flood plains and reservoirs of the area

Using TPS Series of Prof. James Rohlf for resolving problems related to morphology is a common technique in academia. I already used this series in previous successful works, however I do not remember how we can produce NTS files for Thin Plate Spline analysis. I appreciate any help from experts.

my project is Identification of family members (3Taxa),I did ANOVA test for a set of Morphometric,Metric and meristic measurement ,there is no significant difference,what suitable test in such case.

also I look for suitable test for qualitative trait.

Thanks in advance

These days I start with a novel project of drone-based geomonitornig of valuable weathering landscape (earth pyramids/stone dolls). Our plan is to make drone-based inventarization of the geoforms as well as calculation of their morphometry but also the follow-up of any human impact or degradation of the site. We will produce aerial videos, but drone-based 3D model and orthophoto with high resolution ( of about 0.1 m).

However, I can't find something similar in the literature so far at least to compare the approaches or to have a new ideas.

Any help is very welcome to me!

Thank you!

Geometric morphometrics is now being applied for fish species using landmark-based truss network system with different computer software. Can this network system be applied to other animal's morphometry and craniometry?

Thank you in advance.

Analysing hydrologically corrected DEM avails an opportunity to calculate morphometric indices such as drainage basin density(DD) (which takes manual approach). Can not DD and others be extracted automatically?

Could anyone suggest any online sources (databases, dedicated websites, etc.) on insect morphometric characteristics, please? I'm particularly interested in insect mouthparts and tarsi measurements. Thank you! I appreciate your time and help! Alina

How morphometric and morphotectonic parameters of drainage systems help us to find out complex structural features such as shear/suture zones?

I would like to know the characteristics that differentiate between this two species, it is very confusing.

SL gradient index = (change in elevation/change in length of river)*L(river length), how can we calculate the L values?

I am looking for literature about the effect of aquatic pollution on fish morphometrics. Kindly may you suggest me the relevant literature. Thank you.

Can we describe a new species of fish based on the examination of morphometric data, meristic characters and comparative materials without DNA barcoding?

Can we describe a new species of fish based on the examination of morphometric data, meristic characters and comparative materials without DNA barcoding?

I am using PAST software to apply on morphometrics of fish. Can anyone tell me can I remove size effect using PAST as there is option present "remove size from distances" with ''allometric vs standard" which as based on Elliott, 1995 formula. But the confusion is that as Elliott formula is based on standard length, while PAST doesn't demand to feed standard length given in data and directly modify the values.

If someone is using PAST, kindly guide me in this regard. Thank you in anticipation.

Suppose the prior group classification of specimens is group 1, and during the classification process through discriminant analysis, very few or almost zero of the specimen fall in group 1. What would be the decision process on those group 1 specimens?

I am interested to determine the morphometric characters of fish using TRUSS network system. Can anyone please suggest me the software and theirs manual to make landmarks and determine the distance between them.

I have exactly the same question as the person who is asking in this link:

All I know is that the number of rows and columns in this matrix are double the number of landmarks because one of them (either rows or columns) represents the variables, that is, the x- and y- coordinates of the landmarks within the tps format. The main issue with interpreting this matrix would be figuring out how does R arrange the variables. I'm guessing this would be 1x, 1y, 2x, 2y, 3x, 3y,...

Also this does not explain why columns and rows are BOTH double the number of landmarks. I'm (again) guessing that columns are (maybe) representing variables, and rows are (maybe) representing a number of principal components arranged by variation percentage explained, set by default to be the same as variables.

I'm trying to identify different rodent species from footprint tracks. The rodents run over 'ink' and then leave a trail of footprints on card. Due to various reasons, the back pads of their feet sometimes fail to leave marks on the paper, and this, therefore, results in missing landmarks. (I used TpsDig to create the landmarks). I've tried various software to analyse these landmarks, such as PAST and MorphJ, but both don't seem to deal with missing LMs very well. Can anyone shed some light on what approaches may be best to deal with this problem?

Do you have some suggestions about how to apply DAPC (adegenet R package) analysis on the Geometry Morphometry dataset?

The dataset contains 12 morphometric points characterized by XY coordinates for each specimen.

Thnx

Dear Researchers Society, I prepare my master's thesis on the genus Mentha L. (Lamiaceae Lindl.). Could someone suggest me useful articles, publications and websites about representatives of this genus, descriptions of species, their morphometry, a list of confirmed taxa, identification keys and other information that you consider relevant. I thank You in advance.

My colleagues an I have found a very old Taxux tree in Crimean Mts. Can morphometric data of the trunk be useful for rather plausible inferring its age? Please help with advice!

Hi all,

Is there currently a data repository for species morphometrics data? If not, I would like to start one (open source of course).

Would this be something other researchers would be interested in contributing to or using in their own studies?

I am trying to get an overview of already existing morphometric measurements done on

*Gadus morhua*. Does anyone know a place, where I might be able to find extensive morphometric data, i.e. with as many measurements as possible done on each individual (eg. lower jaw length, lower jaw with, eye diameter, etc.)I want to study tectonic controls on drainage systems in my study area, which has varying lithology. How can we say a change in morphometric indices (such as asymmetry factor or basin elongation ratio) is due to change in lithology or due to tectonic control? How can we relate the Hypsometric curve with tectonic activity?

I am trying to collect world-wide data on snake morphometrics (e.g. mass, SVL, TL, sex, etc.). Could all willing researchers who have snake morphometric data please contact me and send me your data in a .csv file.

I will compile the list of citations according to contributions, as well as any others who you suggest should be named in the citation of your data.

Thank you!!

Hello,

I am trying to investigate interspecific patterns of shape variation in a large clade of fishes and to do a preliminary test to see whether any of the variation in shape is related to a variety of categorical environmental variables. I have already done PCAs and CVAs at various points and have even done a PGLS (I think correctly). But I was most interested in PLS (or some such analysis), because it could give me a much more succinct (multivariate) view of the trends in shape with respect to multiple environmental factors (one figure!) than would a PCA (which would require many univariate graphs to get ideas of multivariate trends and therefore lots of eye-tiredness for pub readers...). pPLS would be even better because I could get at those trends after accounting for phylogeny, but I'm not sure it can be done with categorical variables in one block and I'm not sure that plsDA will do exactly what I'm looking for. Does anybody have any opinions about whether (and how) this type of analysis can(should) be done or have citations I can check out? The few examples I have found that used categorical data only had one factor they were working with in a PGLS and I'm thinking very few people especially in ecology are using plsDA anymore. Thanks in advance for any help!

Jessica

Hello everybody,

I have a set of 25 morphometric variables (distance-based) of fish and 1 categorical variable (river) with 9 levels. I am trying to find out a way, that will allow me to identify which of morphometric parameters from the whole set are statistically significant among groups (rivers). I have tried to do a discriminant analysis, but there is no information about significance of characters, only the coefficients of discriminants. Can someone please give me an advice how to do it? Thank you very much. Peter

I want to work on using geometric morphometrics to inform the phylogenetic relationships of fishes and potentially provide insights on the morphological implications of lifestyle transitions over evolutionary time (e.g., benthic -> pelagic). What should I look out for in desired regions in terms of landmarking, as well using morphometrics data with an existing phylogeny?

Suggestions for added literature reading are welcome, as I am only starting with Adams et al. (2013), which also has good stuff.

Dear colleagues,

Does anyone know how tpsdig2 estimates missin landmarks? They have a tool rigt next to the landmark marker called "next landmark is missing", which allows you to "skip" missing landmarks, or at least insert a value in place of that landmark. Does anyone know how the program does this calculation?

Thanks in advance.

I have tried to compare different morphometrical parameters for my study area derived from SRTM, ASTER, ALOS, CARTODEM with reference to morphometric parameters derived from Toposheets.

I wish to recommend which DEM gives accurate results with reference to SOI Toposheets?

I need a statistical basis to base my argument.

Which statistical test shall I do for my research?

I tried to use Morphologika to format my data, but even the sample data set won't work (a message pops up "error in data") and the new software, EVAN toolbox, costs money to use. I want to be able to look at vectors to examine sex differences in shape to determine the severity and directionality of the sex variation at each landmark. But whenever I attempt to do the compare vector analyses, it says that there isn't enough appropriate data to analyze. Does anyone have this problem? Maybe there's a better software that I can use to study vectors/angles? Any suggestions?

I need to identify marine fish eggs collected from Sri Lankan waters up to lowest possible taxanomic level by using morphometric and meristic characters. Please recommend any guide or research papers relevant to my search.

I'm looking for a good authoritative source that walks me through methods for morphometrics.

Hello,

I am dealing with linear measurements of limb bones, and I already have run a PCA to explore the dataset. If I want to extrapolate an ontogenetic growth trajectory, what is the best approach?

Thanks

Dear researchers, I need your help!

Here I am attaching picture of tiny

*Oxynoemacheilus*sp.I was wondering how is it possible to count number of scales in Lateral line when fish has got such tiny scales.

BTW. I have tried to look in binocular but could not see anything :(

Thank you in advance,

Otherwise I am hopeless :(

Combination of morphometric and colorimetric has been applied for feature extraction in detection algorithm. In noisy background, this CV technique facing wrong identification results as well as ML algorithm being developed to tackle pixels cluster into salient image regions.

I heard that this parameter (DBM) is well known from continuum mechanics and is usually used for the analysis of volume changes in flowing liquids or gases. I am seeking some theories of how does it apply for neuroimaging morphometry.

I would like to analyse the shape of parotoid glands between two species by using landmarks. But because of assymetries between glands of an individual (i have observed assymetries in many of my samples) i m doubtful to try it. I am also inexperienced in this approach. So,could anyone inform me whether it is an appliable idea to analyse the shape of parotoid glands ?

Dear friends,

I do have morphometric data of a species from twelve different rivers -the morphometric data includes 24 measurements. can any one suggest more suitable statistical methods to distinguish them morphometrically to identify the variations. Presently i am about use ordination techniques like clustering or nMDS.

Many thanks in advance.

Sileesh Mullasseri

Population dynamics and Molecular characterization of genetic variants of fish fauna

I have added following objectives for above work as a part of my Ph.D. thesis

1. Morphometric measurements of fish samples

2. Study of Population dynamics of economically important fish population

3. Gut content analysis of fish samples for assessment of feeding overlap

4·Study of genetic variants of fish samples for probing any positive mutation if any

5·Physico-Chemical analysis of water samples from different sampling localities

**Are these objectives sufficient to support my Ph.D. thesis or i have to add some more data ? Moreover kindly guide me that according to the objective, are these two themes (Population dynamics and Molecular Characterization) are correlating with each other or not?**

**I have added following objectives for above work as a part of my PhD. thesis**

1. Morphometric measurements of fish samples

2. Study of Population dynamics of economically important fish population

3. Gut content analysis of fish samples for assessment of feeding overlap

4·Study of genetic variants of fish samples for probing any positive mutation if any

5 ·Physico-Chemical analysis of water samples from different sampling localities

**Are these objectives sufficient to support my Ph.D. thesis or i have to add some more data ? Moreover kindly guide me that according to the objective, are these two themes (Population dynamics and Molecular Characterization) are correlating with each other or not?**

**Kindly must consider my question?**

Analysing morphology-habitat relationships in a montane plant species, I am thinking of using slope exposition (i.e., northern, southern slopes, etc.) as one of the habitat features, since a direct measuring of all the associated microclimatic factors appears problematic. I have plant samples from many sites within a montane area of ca. 1300 squared kilometres and for each site I have slope sexposition data (cardinal and inter-cardinal directions). I need to correlate this data with leaf morphometric anatomical/morphological traits.

I would be grateful if someone could also recommend some papers reporting relationships between plant growth/occurrence and slope exposition in mountains.

in Arc GIS it is possible to measure morphometric characteristics of a basin, but I face difficulty to compute the above parameters. How can I compute it? help help. Thank you.

Hi there, I am doing a zooarchaeological analysis in rodent bones. I have identified the taxons involved and group them in size groups (Big, medium and small). So, besides that, I need to take measures from my bone ensemble. What do I have to measure for each one of the different bone types? (Long bone, short, flat, irregular and besides, teeths). For example: In a femur, should I measure the size of the diafisis and also the whole bone? or what? I do not have clue at all above this

I would really appreciate any advice in this matter

Thank you for your time

The extensive literature on crocodilian morphometrics focuses either on cranial morphology or body size indicators such as Total Length (TL), Snout-Vent Length (SVL) and Body Mass (BM). So far I have found very few research dealing with relative limb proportions in living crocodilians (e.g., Ouboter, 1996; Farlow & Britton, 2000).

I am interested in comparing the overall body and head size of free-ranging mammals from different geographic locations. Since they are free-ranging, touching them or taking measurements with tapes are not feasible all the time.

i have to describe a gall midge (Diptera) and than compare morphometric characters of the same population at 1st and 2nd generation

Hi. I am developing a machine learning model to predict the diagnosis of a subject using his MRI data preprocessed using Voxel-based Morphometry. So, I have two groups of subjects (patients and control), and each person has a 3D volume with 128x128x128 voxels in MNI152 space.

The problem is that the groups have significantly different proportions of gender (verified using Chi-square proportion test). In another type of data, I would "regress out" (using a linear detrending algorithm) the effect of the non-imaging variable. However, I am not sure if this would make sense in this kind of data.

Is it make sense "regress out" the gender (or age and head size) from the intensity value of the voxel? What would be the best way to address the confounding effect of these non-imaging variables?

PS: I am using a deep neural network as the classifier.

My current research is based on dental morphometrics, hence I need this ASUDAS plaques as reference to standardize my samples.

I mean a software which orient the objects to the most efficient shape and after that, analyse the distances between the poitns from the cloud points.

I am working with bones and other small objects.

Hello, I am currently working on a fish morphometrics project. We are attempting to perform a Between Groups PCA with our morphometrics data as is it considered more efficient than a regular PCA when assessing biological groups. Would appreciate if anyone could recommend me a software or package to perform this analysis.

Dear colleagues

How can we call the diversity of morphometric forms of the seeds of a population [ ex; of argan tree ] situated in the homogeneous ecological and climatic conditions?

Best regards,

Réda Kechairi

I am working on Insects (Micro-hymenopterans) and trying to differentiate the two species of the same genus using morphometric as a tool. I found that Geometric Morphometric could be used for the objective proposed. So where can I learn this tool.

Please help in this regard.

Thanks in Advance.

I have done morphometric analysis of watershed ,which gives bifurcation ratio as 4.57, elongation ratio is 0.57,shows that this watershed is elongated and peak flow is extended .(it will come early?)

means,if normal watershed what ever peak flow occur ,in elongated watershed ,the peak flow is some what in later stage

is it so!

is anyone has books related to river morphometry(specially for drainage of river is concern),I have refered but few things came across!

The calcaneo-cuboid joint is formed by cuboidal articular facet of calcaneus and the calcaneal facet of cuboid.

Planning to do a morphometric study on cuboidal articular facet of calcaneus?

Not found any literature for this study.

So, kindly give your valuable views regarding the same.

I've collected a diverse range of measurements from Painted Dogs and would like to calculate body condition. Is there a general consensus using say weight/pes for large carnivores? Or weight and other landmarks. Is log or a natural log applied to respective variables? If you have a reference that I could follow up also that would be great. Thanks

when a digenean specimens (belongs to the same species) isolated from different hosts, some morphological and morphometric changes occur. what are these changes?

If so, which measurements of the rhamphotheca should be taken?

Can anyone help me to get a a computer program used in the study of phenotypic characteristics of the insects. I would be grateful to him.

I need to identify the type of fish caught from fish images. How can I locate anchor points/landmark points to extract features from the image?

Namely, I want to locate eye position, dorsal and pelvic fin. Need to get Fish mouth length, Dorsal and Caudal fin length.

Right now I am trying with SIFT method to get key points.

Can someone suggest me how can I get the specific key points?

Dear all,

I am working on morphometry of a beetle community (cca. 30 species) belonging to three distinct families, but some of them clearly showing same way of life. We would like to detect which of 25+ morphological characters (mostly lenghts of different body parts, including legs) can be attributed to convergent evolution (i.e. in species belonging to different families but showing same way of life), and divergences (i.e. in species belonging to the same family but evolved differently, accordingly to their different ways of life).

Is there any explicit test for showing that? Is this possible to test without molecular data? (we know there are three distinct molecular groups, but we do not have our own molecular data)

I would be very happy to receive suggestions of any kind.

All the best,

Jure

when I use the "Residuals/Predicted Values From Other Regression" function in MorphoJ, I can't found the independent variables "data matric" and "variables"in the drop-down menus. Is there something wrong during my opretion? Thanks

I am using the first principal component of morphometric data as a response variable in a PGLS analysis. Log transformation of this variable produces residuals which have a better fit. Are there any issues with transforming principal component scores?

I am using 2 curves with 15 evenly-spaced semilandmarks to capture the lateral morphology of a very disparate sample of bird beaks. The 2 curves are constraining by 3 regular lndmks forming a triangle, the tip-of-the-beak one constrains both curves. When I slide the smlndmks in tpsRelw with min-dsquare slide method most of the smlndmks collapse in a very narrow section of both 2 curves in the Procrustes superimposition. Minimum bending energy slide method does not affect the superimposition in this way, but I need to use min-dsquare. Any idea what is going on here? Is it a bug of the program or is a proper statistical effect?

I am new in this concept. So kindly provide some concept papers, analytical papers etc.

I am an MSc student and for my final thesis project I had set out to perform a comparative morphometric analysis between three avian families. My own dataset of one family returned results, however the dataset I was sent to perform the comparison with is unusable (none of us can work out why or how to fix this). Sadly, I do not have time to repeat any procedure and am having to settle with extremely restricted, unoriginal results. I have PCA results for all datasets, but as I am unable to run the datasets together, I cannot directly compare them.

I am struggling to write my report as no direct comparison between the groups was possible and as such I have no overall results. Is there a 'way' I can still write a decent report?

We have a set of facial profiles - from the glabella between the eyebrows to the gnathion on the chin.

To me, it seems the most sensible way to decompose this shape into a Fourier series, would be to consider it as a single wave and use a standard Fourier decomposition.

I have noted, however, that most people facing the same problem will use an elliptical Fourier analysis, for the analysis of closed contours. In order to do this they will artificially make the surface closed e.g. by reflecting the profile and decomposing the two joined mirror images such as in Rose et al (2003) Lateral facial soft-tissue prediction model: Analysis using Fourier shape descriptors and traditional cephalometric methods. Am J. Phys. Anthropol. This is not the only paper to do this or something similar.

My question is: when the profile is simply an open line, why go to such lengths to use an elliptical Fourier decomposition, when the "regular" Fourier decomposition would serve the purpose? Or am I wrong that one could the "regular" Fourier decomposition in such a context?