Discover GATB/MindTheGap Open Source project by @GATB

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Rank 766,985 (Top 16 %)
Language
C++
License
GNU Affero Genera...
Created over 8 years ago
Updated over 2 years ago

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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.

bcalm

compacted de Bruijn graph construction in low memory

Python

minia

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

C++

gatb-core

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

C++

simka

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

C++

dsk

k-mer counting software

Shell

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.

Python

gatb-minia-pipeline

GATB Minia assembly pipeline

Perl

bloocoo

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

C++

pyGATB

Python3 wrapper for GATB-Core.

Python

leon

Leon - FASTA and FASTQ read compressor

Shell

short_read_connector

Short Read Connector (SRC)

C++

TakeABreak

TakeABreak detects inversion breakpoints in read datasets without a reference genome

C++

tigops

Manipulation of unitigs and contigs

C++

gatb-tools-machine

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

Shell

gatb-core-tuto

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

JavaScript

GATB/MindTheGap

GATB

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