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genotoul-bioinfo / metagWGS
GNU General Public License v3.0 onlymetagWGS 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.
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GeT-nextflow-NGL-Bi / template-nf
CeCILL Free Software License Agreement v2.1Updated -
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asm4pg / GenomAsm4pg
GNU Affero General Public License v3.0Updated -
genotoul-bioinfo / D-GENIES
GNU General Public License v3.0 or laterDotplot large Genomes in an Interactive, Efficient and Simple way
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inter_CATI_omics / Hackathon_octobre2021 / hackathon_DataScience_2021
GNU Affero General Public License v3.0Updated -
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Omnicrobe / Omnicrobe web
Apache License 2.0Updated -
Orfeo ToolBox / pyotb
Apache License 2.0pyotb is a library that enables easy use of the Orfeo Tool Box (OTB) in Python
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PGBA_public / GenoFig
GNU General Public License v3.0 or laterGenoFig 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.
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UMR GDEC / magatt
GNU General Public License v3.0 or laterPipeline used to tranfert gene annotation (GFF3) between different versions of assemblies.
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URGI-Anagen / panTEannot
CeCILL Free Software License Agreement v2.0panTEannot 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.
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URGI-Anagen / panREPET
CeCILL Free Software License Agreement v2.0panREPET 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.
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