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Some templates useful for Gitlab CI Yaml scripts.

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.

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.

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

Pipeline Nextflow

This project aims to create a opensilex instance running on docker-compose stack

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

Retranscription d'audio en txt

A quick and dirty beamer theme for INRAE