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PAPPSOms++ is a comprehensive C++ library including useful functions to handle mass spectrometric data, either in a proteomics setting or for data visualization. Abstractions include peptides, proteins, isotopic clusters, mass/drift spectra...

Gitlab Pages: https://egfv.pages-forge.inrae.fr/bioinfo/nextflow-bam2bigwig

Gitlab Pages: https://egfv.pages-forge.inrae.fr/bioinfo/jbrowse-batch-submission

panTEannot serially annotates transposable elements from multiple genomes using a common reference library. The annotation is a light version of TEannot from REPET package. These annotations can be used as input for the panREPET tool.

panREPET is a pipeline detecting shared Transposable Element (TE) insertions among a pangenome. It takes in charge multiple de novo whole-genome assemblies of the same species. It compares TE copies between each pair of genomes then identifies TE copies shared by a group of individuals.

GroupingProtein does filtering, protein inference and grouping of mass MS/MS identification result (thousands of samples, high resolution mass spectrometers)

MAGE est un logiciel de simulation monodimensionnelle d'écoulement en rivière en régime transitoire. Son domaine d'application privilégié est la simulation des crues et des zones inondées. Les équations utilisées sont les équations de Saint-Venant.

metagWGS is a workflow dedicated to the analysis of metagenomic data. It allows assembly, taxonomic annotation, and functional annotation of predicted genes. Since release 2.3, binning step with the possibility of cross-alignment is included. It has been developed in collaboration with several CATI BIOS4biol agents. Funded by Antiselfish Project (Labex Ecofect), ExpoMicoPig project (France Futur elevage) and SeqOccIn project (CPER - Occitanie Toulouse / FEDER), ATB_Biofilm funded by PNREST Anses, France genomique (ANR-10-INBS-09-08) and Resalab Ouest.

Software Development Kit for the Geospatial Data Center of "la Maison de la Télédédection"