SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity detection toolkit.

Run genomic data using branch-site model in PAML to identify positive selected genes

Wrapper for the genoPlotR R package. This wrapper makes phylogeny, genbank files and blast comparisons that is needed for the genoPLotR package

A collection of mostly Perl scripts for Bioinformatics

Genomic plot in trellis layout

Nucmer from Mummer3 followed by ggplot for nicer and more customisable genome alignment plots.