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GATB

GATB

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Genome Analysis Toolbox with de-Bruijn graph

Location:France

Home Page:http://gatb.inria.fr

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GATB's repositories

bcalm

compacted de Bruijn graph construction in low memory

Language:PythonLicense:MITStargazers:97Issues:11Issues:72

minia

Minia is a short-read assembler based on a de Bruijn graph

Language:C++License:AGPL-3.0Stargazers:70Issues:8Issues:26

gatb-core

Core library of the Genome Analysis Toolbox with de-Bruijn graph

Language:C++Stargazers:63Issues:15Issues:40

simka

Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.

Language:C++License:AGPL-3.0Stargazers:44Issues:5Issues:30

dsk

k-mer counting software

Language:ShellLicense:AGPL-3.0Stargazers:38Issues:9Issues:18

DiscoSnp

DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as well as insertions and deletions, from raw set(s) of reads.

Language:PythonLicense:AGPL-3.0Stargazers:35Issues:7Issues:30

MindTheGap

MindTheGap is a SV caller for short read sequencing data dedicated to insertion variants (all sizes and types). It can also be used as a local assembly tool.

Language:C++License:AGPL-3.0Stargazers:35Issues:8Issues:13

gatb-minia-pipeline

GATB Minia assembly pipeline

Language:PerlStargazers:27Issues:5Issues:25

bloocoo

Bloocoo is a k-mer spectrum-based read error corrector, designed to correct large datasets with a very low memory footprint.

Language:C++License:AGPL-3.0Stargazers:11Issues:5Issues:1

pyGATB

Python3 wrapper for GATB-Core.

Language:PythonLicense:AGPL-3.0Stargazers:11Issues:6Issues:5

short_read_connector

Short Read Connector (SRC)

Language:C++License:AGPL-3.0Stargazers:9Issues:4Issues:5

leon

Leon - FASTA and FASTQ read compressor

Language:ShellLicense:AGPL-3.0Stargazers:8Issues:8Issues:9

TakeABreak

TakeABreak detects inversion breakpoints in read datasets without a reference genome

Language:C++License:AGPL-3.0Stargazers:3Issues:7Issues:0

gatb-tools-machine

Build a single Docker image containing all GATB-Tools ready to be used. This is an official repository, not a mirror.

Language:ShellStargazers:2Issues:5Issues:0

tigops

Manipulation of unitigs and contigs

Language:C++Stargazers:2Issues:4Issues:0

gatb-core-tuto

This project hosts the source code of the GATB-Core Programming Online Tutorial.

Language:JavaScriptStargazers:1Issues:4Issues:2

github-release-api

A script to facilitate the use of Github Release API v3

Language:ShellLicense:Apache-2.0Stargazers:0Issues:0Issues:0