A user-friendly workflow for phylogenomics
☆225Feb 5, 2026Updated last month
Alternatives and similar repositories for GToTree
Users that are interested in GToTree are comparing it to the libraries listed below
Sorting:
- Bioinformatics Tools☆90Updated this week
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆82Mar 2, 2023Updated 3 years ago
- ATLAS - Three commands to start analyzing your metagenome data☆403Nov 28, 2025Updated 3 months ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆323Updated this week
- Assessing the quality of metagenome-derived genome bins using machine learning☆252Mar 20, 2025Updated last year
- Read alignment statistics for metagenomics☆390Jan 16, 2026Updated 2 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆612Feb 18, 2026Updated last month
- A hybrid assembly and MAG recovery pipeline (and more!)☆104Jan 27, 2026Updated last month
- DAS Tool☆169May 2, 2024Updated last year
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆178Mar 8, 2026Updated last week
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆240Oct 12, 2025Updated 5 months ago
- BEAV: Bacterial Element Annotation reVamped☆74Aug 21, 2025Updated 6 months ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆106Jan 22, 2026Updated last month
- Gene cluster comparison figure generator☆637Dec 22, 2025Updated 2 months ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆89Oct 27, 2023Updated 2 years ago
- ☆25Jun 20, 2023Updated 2 years ago
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆404Mar 2, 2026Updated 2 weeks ago
- Autometa: Automated Extraction of Genomes from Shotgun Metagenomes☆45Jan 24, 2025Updated last year
- Rapid comparison and dereplication of genomes☆329Nov 10, 2025Updated 4 months ago
- SemiBin: metagenomics binning with self-supervised deep learning☆156Feb 19, 2026Updated last month
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆219Jan 27, 2025Updated last year
- A complete pipeline for metagenomic analysis☆440Mar 11, 2026Updated last week
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆183Mar 13, 2026Updated last week
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆298Feb 3, 2026Updated last month
- An updated pipeline for pangenome investigation☆346Jan 15, 2026Updated 2 months ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆227Jan 20, 2026Updated 2 months ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Dec 19, 2022Updated 3 years ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆50Mar 13, 2025Updated last year
- ☆85Jan 16, 2026Updated 2 months ago
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆541Updated this week
- geNomad: Identification of mobile genetic elements☆295Nov 10, 2025Updated 4 months ago
- Bioinformatics program inStrain☆182Mar 12, 2026Updated last week
- ☆81Mar 13, 2026Updated last week
- customizable pipeline to identify viral sequences from (meta)genomic data☆283Nov 28, 2024Updated last year
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆202Aug 25, 2025Updated 6 months ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆103Jun 25, 2023Updated 2 years ago
- Tool to estimate genome quality of microbial eukaryotes☆39Aug 1, 2025Updated 7 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago