molecular-evolution topic
stk
A Python library which allows construction and manipulation of complex molecules, as well as automatic molecular design and the creation of molecular databases.
phyx
phylogenetics tools for linux (and other mostly posix compliant) computers
SNPGenie
Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
cogent3
Comparative Genomics Toolkit 3
MGCplotter
Microbial Genome Circular plotting tool for comparative genomics using Circos
PyPHLAWD
Python version of PHLAWD
CAFE_fig
A tool to extract and visualize the results of CAFE (Computational Analysis of gene Family Evolution)
CafePlotter
A tool for plotting CAFE5 gene family expansion/contraction result
amoebae
Workflow for identifying and classifying homologous gene/protein sequences
dfoil
DFOIL: Introgression Testing for Five Taxa