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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.

Formation et tp SLURM pour la FCC 2022 à Montpellier

FAIDARE: FAIR Data-finder for Agronomic Research

It provides web services (based on the BrAPI standard) and a web interface with easy to use filters to facilitates the access to plant datasets from a federation of sources.

DataDiscovery aims at providing researchers a simple and fast access to relevant biological data using specific keywords and easy to use filters.

This tool is expected to be easily customizable for specific filters, environments, or data schemas.

Site web de MIAT, avec wowchemy (hugo).

Pour voir vos modifications après un commit, la preview du site web est là : https://miat-com.pages.mia.inra.fr/miat_website

Assignez vos merges requests pour qu'elles soient passés sur le "vrai" site web, à votre correspondant d'équipe : @benjamin.linard, @gauthier.quesnel, @philippe.bordron ou @rtrepos

Dotplot large Genomes in an Interactive, Efficient and Simple way

Java library for metabolic networks

GenoFig is a tool for graphical vizualisation of annotated genetic regions, and homologous regions comparison. It was designed to be as easy to use as possible for biologists.

Pipeline used to tranfert gene annotation (GFF3) between different versions of assemblies.

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.

List of workflows (nextflow/snakemake) tested for Genotoul Cluster.

Electron Desktop App For Bisulfite Sequencing Processing Software (BiSePS)