pegi3s's repositories
dockerfiles
This repository contains Docker files for the images maintained by the Phenotypic Evolution Group at the Institute for Molecular and Cell Biology / Instituto de Investigação e Inovação em Saúde da Universidade do Porto.
phylogenetic-tree-collapser
Phylogenetic Tree Collapser
orthologs-finder
Commands to retrieve orthologous genes from DIOPT or Ensembl.
pss-genome-fs
GenomeFastScreen: a Compi pipeline for Fast Screening of PSS (Positively Selected Sites).
two-way-blast
A Compi pipeline for finding orthologs using a two-way BLAST approach.
auto-phylo
A Docker-based pipeline maker for phylogenetic studies
auto-pss-genome
Auto-PSS-Genome (Automatic Positively Selected Sites Genome) is a Compi pipeline to automatically identify positively selected amino acid sites using three different methods, namely CodeML, omegaMap, and FUBAR in complete genomes (FASTA files containing all coding sequences).
evoppi-querier
A program to make queries to the EvoPPI web server.
seda-pipeline-phylogenomics-study
A SEDA-Compi protocol for for a phylogenomics study.
seda-pipeline-protein-family-members
A SEDA-Compi protocol for obtaining protein family members.
auto-p2docking-docs
Read the docs for auto-p2docking
auto-phylo-docs
Read the docs for auto-phylo
auto-phylo-pipeliner
A GUI to design auto-phylo pipelines.
cport
CPORT is a Consensus Prediction Of interface Residues in Transient complexes used to predict protein-protein interface residues.
drosophila-inversion-breakpoints
Drosophila Inversion Breakpoints (DIB) pipeline.
seda-pipeline-phylogenetics-datasets
A SEDA-Compi protocol for preparing datasets for large scale phylogenetic analyses.