Search Packages

phykit

a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies

clipkit

a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference

phylofisher

PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datasets that consist of eukaryotic protein sequences.

orthofisher

a broadly applicable tool for automated gene identification and retrieval

kitsune

a toolkit for evaluation of the lenght of k-mer in a given genome dataset for alignment-free phylogenimic analysis.

aniclustermap

A tool for drawing ANI clustermap between all-vs-all microbial genomes

ngsphy

NGSphy: phylogenomic simulation of next-generation sequencing data

orthosnap

a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

cafeplotter

A tool for plotting CAFE5 gene family expansion/contraction result

phyde

Hybridization detection using phylogenetic invariants

fastdtlmapper

Fast genome-wide DTL(Duplication-Transfer-Loss) event mapping tool

tmarsel

Repository for TMarSel

phyca

Universal ortholog based Phylogenomic toolkit.