Pinned Repositories
auto-phylo
A Docker-based pipeline maker for phylogenetic studies
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.
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-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
pegi3s's Repositories
pegi3s/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.
pegi3s/phylogenetic-tree-collapser
Phylogenetic Tree Collapser
pegi3s/auto-phylo
A Docker-based pipeline maker for phylogenetic studies
pegi3s/orthologs-finder
Commands to retrieve orthologous genes from DIOPT or Ensembl.
pegi3s/pss-fs
FastScreen: a Compi pipeline for Fast Screening of PSS (Positively Selected Sites).
pegi3s/pss-genome-fs
GenomeFastScreen: a Compi pipeline for Fast Screening of PSS (Positively Selected Sites).
pegi3s/two-way-blast
A Compi pipeline for finding orthologs using a two-way BLAST approach.
pegi3s/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).
pegi3s/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.
pegi3s/check-cds
CheckCDS: a compi pipeline to produce valid CDS files.
pegi3s/classify
Image classification using PyTorch
pegi3s/drosophila-inversion-breakpoints
Drosophila Inversion Breakpoints (DIB) pipeline.
pegi3s/evoppi-querier
A program to make queries to the EvoPPI web server.
pegi3s/haddock-tools
pegi3s/ipssa
IPSSA (Integrated Positively Selected Sites Analyses): a Compi pipeline for to automatically identify positively selected amino acid sites using CodeML, omegaMap, and FUBAR.
pegi3s/seda-pipeline-phylogenomics-study
A SEDA-Compi protocol for for a phylogenomics study.
pegi3s/seda-pipeline-protein-family-members
A SEDA-Compi protocol for obtaining protein family members.
pegi3s/whiscy
New version of the code of the Whisky bioinformatic predictor of protein-protein interfaces
pegi3s/auto-p2docking
pegi3s/auto-p2docking-docs
Read the docs for auto-p2docking
pegi3s/auto-phylo-docs
Read the docs for auto-phylo
pegi3s/auto-phylo-pipeliner
A GUI to design auto-phylo pipelines.
pegi3s/bdip
pegi3s/cport
CPORT is a Consensus Prediction Of interface Residues in Transient complexes used to predict protein-protein interface residues.
pegi3s/seda-pipeline-phylogenetics-datasets
A SEDA-Compi protocol for preparing datasets for large scale phylogenetic analyses.