urgi-anagen/panREPET

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.

Last synced at: 6 months ago - Stars: 2 - Forks: 0

urgi-anagen/event_caulifinder

Caulifinder : a pipeline for automatic detection and annotation of caulimovirid endogenous viral elements in plant genomes

Last synced at: 5 months ago - Stars: 0 - Forks: 0

urgi-anagen/REPET-snakemake

Last synced at: 7 months ago - Stars: 0 - Forks: 0

urgi-anagen/te_finder

A suite of C++ programs developed for transposable element search and their annotation in large eukaryotic genome sequence. A part of the REPET package.

Last synced at: 5 months ago - Stars: 1 - Forks: 0

urgi-anagen/wiki-repet

wiki for REPET usage

Last synced at: 7 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

urgi-anagen/panTEannot

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.

Last synced at: 7 months ago - Stars: 2 - Forks: 0

urgi-anagen/caulifinder_docker

In frame of EVENT project, all code to build a docker image for the Caulifinder tool. It allows discovering Caulimoviridae sequences in plant genomes.

Last synced at: 6 months ago - Stars: 0 - Forks: 0