gff2aplot: Plotting sequence comparisons.
ABSTRACT gff2aplot is a program to visualize the alignment of two sequences together with their annotations. Input for the program consists of single or multiple files in GFF-format which specify the alignment coordinates and annotation features of both sequences. Output is in PostScript format of any size. The features to be displayed are highly customizable to meet user specific needs. The program serves to generate print-quality images for comparative genome sequence analysis.
gff2aplot is freely available under the GNU software licence and can be downloaded from the address specified below.
SourceAvailable from: Valery M Kirzhner[Show abstract] [Hide abstract]
ABSTRACT: The authors propose a simple version of the dot-plot scheme to be used in the case when the distances between sequence elements may take more than two values. The method is applicable, in particular, to the case of the sequences of large-length windows when the sets of distance values are continuous. The proposed technique is simple to implement and the results can produce readable maps for further analysis. To illustrate its potentialities, the method has been applied to the comparison of genomic sequences. The asymmetry in the number of direct and reverse tracks for the Homo sapience genome has been discovered.Information Sciences 04/2011; DOI:10.1016/j.ins.2010.12.009 · 3.89 Impact Factor
Article: Gene predictions and annotations