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auto-p2docking-docs

Read the docs for auto-p2docking

auto-phylo

A Docker-based pipeline maker for phylogenetic studies

auto-phylo-docs

Read the docs for auto-phylo

auto-phylo-pipeliner

A GUI to design auto-phylo pipelines.

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).

cga

CGA (Conserved Genome Annotation) is a Compi pipeline to efficiently perform CDS annotations by automating the steps that researchers usually follow when performing manual annotations.

check-cds

CheckCDS: a compi pipeline to produce valid CDS files.

classify

Image classification using PyTorch

cport

CPORT is a Consensus Prediction Of interface Residues in Transient complexes used to predict protein-protein interface residues.

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.

drosophila-inversion-breakpoints

Drosophila Inversion Breakpoints (DIB) pipeline.

evoppi-querier

A program to make queries to the EvoPPI web server.

haddock-tools

ipssa

IPSSA (Integrated Positively Selected Sites Analyses): a Compi pipeline for to automatically identify positively selected amino acid sites using CodeML, omegaMap, and FUBAR.

orthologs-finder

Commands to retrieve orthologous genes from DIOPT or Ensembl.

phylogenetic-tree-collapser

Phylogenetic Tree Collapser

pss-fs

FastScreen: a Compi pipeline for Fast Screening of PSS (Positively Selected Sites).

pss-genome-fs

GenomeFastScreen: a Compi pipeline for Fast Screening of PSS (Positively Selected Sites).

seda-pipeline-phylogenetics-datasets

A SEDA-Compi protocol for preparing datasets for large scale phylogenetic analyses.

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.

two-way-blast

A Compi pipeline for finding orthologs using a two-way BLAST approach.

whiscy

New version of the code of the Whisky bioinformatic predictor of protein-protein interfaces