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
☆254Updated last year
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☆201Updated last week
- CarveMe: genome-scale metabolic model reconstruction☆193Updated 4 months ago
- HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).☆231Updated last month
- antiSMASH☆240Updated 2 months ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆314Updated last month
- CAMISIM: Simulating metagenomes and microbial communities☆221Updated last month
- Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…☆155Updated 8 months ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆159Updated 7 months ago
- A user-friendly workflow for phylogenomics☆225Updated last month
- Rapid comparison and dereplication of genomes☆326Updated 2 months ago
- ATLAS - Three commands to start analyzing your metagenome data☆401Updated last month
- motus - a tool for marker gene-based OTU (mOTU) profiling☆166Updated last month
- Bacterial ribosomal RNA predictor☆272Updated last week
- Build a partitioned pangenome graph from microbial genomes☆291Updated last month
- customizable pipeline to identify viral sequences from (meta)genomic data☆279Updated last year
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆283Updated 3 months ago
- Variational autoencoder for metagenomic binning☆315Updated last week
- Python package to study microbial communities using metabolic modeling.☆115Updated 2 weeks ago
- Pipeline for metabolic annotation of microbial genomes☆150Updated 10 months ago
- bioBakery tools for meta'omic profiling☆304Updated 7 months ago
- Eukaryotic Genome Annotation Pipeline☆375Updated last week
- NCBI Prokaryotic Genome Annotation Pipeline☆363Updated 2 months ago
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆213Updated 11 months ago
- geNomad: Identification of mobile genetic elements☆282Updated 2 months ago
- Similarity networks of biosynthetic gene clusters☆149Updated 2 weeks ago
- An updated pipeline for pangenome investigation☆335Updated last week
- A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0☆244Updated this week
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆223Updated 3 months ago
- A genome visualization python package for comparative genomics☆385Updated last month
- breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…☆174Updated 2 months ago