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catfasta2phyml
Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted fileMrModeltest2
C program for selecting DNA substitution models using PAUP*Burntrees
Perl scripts for manipulating output from phylogenetic MCMC software (MrBayes, BEAST, PhyloBayes, etc)translate_fasta_headers
Translate long fasta headers to short - and back!beast2phy
Convert output trees from BEAST to other formatsgrepfasta
Yet another grep for FASTA formatted files - with regexp capacity!get_fasta_info
Some useful summary tools for FASTA formatted filesplotMCMCoutput
Shell scripts (bash) for plotting MCMC output (e.g., from MrBayes v.3, BEAST, etc) using gnuplotreorient_fasta
Reverse-complement DNA sequences as needed in relation to a reference. Based on blastn.fastagap
Remove or replace gaps in fasta formatted filesCheck_MD5SUMS
Check md5 sums for all .md5 and MD5SUMS files found in directory treeptemplate
ptemplate -- A project templateMrAIC
Perl script for selecting DNA substitution models using PhyMLconsensus-sequence
FastEAR
FastEAR - Fast(er) Extraction of Alignment Regions from FASTAfastp-cleaning
Clean fastq files with fastptaxid2scientific_name
Get scientific name from Genbank taxon ID - or the other way aroundphy2fas
Phylip to fasta converter using BioPerlAlign-and-trees-parallel-workflow
Script for running a "standard" phylogenetic workflow on fasta-formatted input. In particular, parallel execution is done whenever possible.efasta2fasta
Convert extended fasta (efasta) to fastaEasy_webshare_on_UPPMAX
Easy file sharing on UPPMAXDIVA-Dispersal-Vicariance-Analysis
Downloaded from SourceForgepMrAIC
Parallel MrAICrun-mrbayes-on-uppmax
Notes on running MrBayes on UPPMAX compute resourcesLove Open Source and this site? Check out how you can help us