codeml

There are 1 repository under codeml topic.

robinvanderlee / positive-selection
Scripts and procedures for detecting positively selected genes and codons in primates
bioinformatics bioinformatics-pipeline bioinformatics-scripts bioinformatics-analysis computational-biology evolution comparative-genomics positive-selection primates genetics sequence-alignment genomics genomes genome-analysis codeml immunity ensembl
Language:Perl 19
LKremer / MSA_trimmer
Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
aligned-regions alignment-trimming cds-alignment codeml codon-alignment molecular-evolution msa-trimmer multiple-sequence-alignment paml phylogenetics sequence-alignment trimmer trimming
Language:Python 16
for-giobbe / BASE
Pronunced /'baze/ - is a tool which allows to integrate non-ubiquitous genes in comparative genomics analyses for selection.
molecular-evolution selection dnds omega codeml comparative-genomics
Language:Shell 4
Arkadiy-Garber / ParaHunter
Identification of gene paralogs in genomes, and calculation of dS and dN/dS values for paralogous gene pairs
codeml duplicates gene-paralogs paml paralogs
Language:Python 3
philippmuench / fastcodeml_docker
fastcodeml inside a docker container
docker-container fastcodeml-docker fastcodeml codeml selection
Language:Groff 3
chenyangkang / Fasta2Codeml
A codeml (PAML package) wrapper to make life easier. Dummy input unaligned multi-species fasta file (a single gene), and output codeml result.
codeml paml ecology molecular-evolution natural-selection selection
Language:Python 2
philippmuench / selection_docker
dN/dS calculation based on codeml, fastcodeml and slimcodeml
codeml docker fastcodeml selection slimcodeml
Language:C++ 2
pegi3s / pss-fs
FastScreen: a Compi pipeline for Fast Screening of PSS (Positively Selected Sites).
positive-selection pipeline compi codeml fubar fasttree
Language:Shell 1
sing-group / adops
Automatic Detection of Positively Selected Sites
biooinformatics mrbayes codeml fasta positive-selection java-bioinformatics java phylogenetics phylogenetic-trees
Language:Java