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MMseqs2: ultra fast and sensitive search and clustering suite
Created
2016-07-20
6,383 commits to master branch, last one 16 days ago
Versatile open-source tool for microbiome analysis
Created
2014-05-16
1,919 commits to master branch, last one about a month ago
Ultra-fast and memory-efficient (meta-)genome assembler
Created
2014-09-25
693 commits to master branch, last one about a year ago
Accurate sample inference from amplicon data with single nucleotide resolution
Created
2014-12-17
782 commits to master branch, last one about a month ago
GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
Created
2016-11-29
961 commits to master branch, last one about a month ago
An analysis and visualization platform for 'omics data
Created
2014-02-26
18,609 commits to master branch, last one 21 hours ago
ATLAS - Three commands to start analyzing your metagenome data
Created
2016-11-30
2,794 commits to master branch, last one a day ago
A complete pipeline for metagenomic analysis
Created
2018-03-15
1,302 commits to master branch, last one about a month ago
A collection of Galaxy-related training material
Created
2015-06-29
25,805 commits to main branch, last one 20 hours ago
MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data
Created
2020-02-20
831 commits to master branch, last one 7 days ago
Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
Created
2015-11-16
248 commits to master branch, last one 3 months ago
Rapid comparison and dereplication of genomes
Created
2016-09-27
273 commits to master branch, last one 3 months ago
Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
Created
2019-02-11
865 commits to master branch, last one 5 months ago
🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
Created
2017-11-11
550 commits to master branch, last one 6 months ago
Genomic Data Retrieval with R
Created
2014-08-05
2,413 commits to master branch, last one 6 months ago
Assembly and binning of metagenomes
Created
2018-05-22
2,180 commits to master branch, last one 16 days ago
:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
Created
2018-06-14
665 commits to master branch, last one 5 months ago
Accurate metagenomic profiling && Fast large-scale sequence/genome searching
Created
2020-10-30
522 commits to main branch, last one 9 months ago
:rocket: A sequencing simulator
Created
2016-11-16
644 commits to master branch, last one 4 months ago
MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
Created
2018-03-07
455 commits to master branch, last one 16 days ago
R package for microbiome biomarker discovery
Created
2019-10-17
269 commits to devel branch, last one 7 months ago
A robust, extensible metagenomics pipeline
Created
2016-04-28
1,727 commits to main branch, last one 6 days ago
Amplicon sequencing analysis workflow using DADA2 and QIIME2
Created
2018-09-26
2,409 commits to master branch, last one 2 months ago
Fast and accurate genomic distances using HyperLogLog
Created
2018-04-03
623 commits to main branch, last one about a year ago
Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
Created
2022-11-14
295 commits to main branch, last one 28 days ago
CAMISIM: Simulating metagenomes and microbial communities
Created
2015-09-11
712 commits to master branch, last one about a year ago
NGLess: NGS with less work
Created
2013-01-08
2,450 commits to main branch, last one about a month ago
Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
Created
2017-04-04
78 commits to master branch, last one 2 years ago
sensitive and precise assembly of short sequencing reads
Created
2018-01-19
3,797 commits to master branch, last one 14 days ago
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Created
2018-06-03
3,260 commits to master branch, last one 4 months ago