franciscozorrilla / metaGEMLinks
An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
☆240Updated 10 months ago
Alternatives and similar repositories for metaGEM
Users that are interested in metaGEM are comparing it to the libraries listed below
Sorting:
- Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks☆181Updated 2 weeks ago
- HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).☆202Updated 10 months ago
- antiSMASH☆213Updated this week
- ATLAS - Three commands to start analyzing your metagenome data☆392Updated last month
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆285Updated last week
- bioBakery tools for meta'omic profiling☆280Updated 3 weeks ago
- CarveMe: genome-scale metabolic model reconstruction☆172Updated 2 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆343Updated last year
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆527Updated 3 months ago
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆372Updated 2 weeks ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆346Updated this week
- customizable pipeline to identify viral sequences from (meta)genomic data☆257Updated 6 months ago
- Rapid comparison and dereplication of genomes☆299Updated 2 weeks ago
- A user-friendly workflow for phylogenomics☆214Updated last week
- Bacterial ribosomal RNA predictor☆246Updated last year
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆374Updated last week
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆145Updated last week
- NCBI Prokaryotic Genome Annotation Pipeline☆339Updated last week
- Pipeline for metabolic annotation of microbial genomes☆147Updated 3 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆310Updated 3 months ago
- Eukaryotic Genome Annotation Pipeline☆355Updated 3 weeks ago
- Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…☆150Updated 2 months ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆214Updated 2 months ago
- Read alignment statistics for metagenomics☆348Updated 3 weeks ago
- A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV☆425Updated last month
- Rapid large-scale prokaryote pan genome analysis☆350Updated 3 years ago
- An updated pipeline for pangenome investigation☆304Updated 3 months ago
- geNomad: Identification of mobile genetic elements☆246Updated 2 weeks ago
- A complete pipeline for metagenomic analysis☆416Updated last week
- A tool for generating consensus long-read assemblies for bacterial genomes☆324Updated last year