Simple Python interface to CoverM's fast coverage estimation functions
☆10Dec 20, 2024Updated last year
Alternatives and similar repositories for pycoverm
Users that are interested in pycoverm are comparing it to the libraries listed below
Sorting:
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆51Feb 20, 2026Updated last week
- 🐦 spideog - Command line utility for Kraken2 reports.☆11Nov 30, 2020Updated 5 years ago
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Feb 5, 2026Updated 3 weeks ago
- A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers☆52Jan 23, 2026Updated last month
- a pipeline to cluster proteins into families☆10Apr 1, 2020Updated 5 years ago
- Mistle is a fast spectral search engine. It uses a fragment-indexing technique and SIMD intrinsics to match experimental MS2 spectra to l…☆16Oct 6, 2023Updated 2 years ago
- Just another minhash implementation.☆12Updated this week
- Python language bindings for bwa☆12Nov 24, 2025Updated 3 months ago
- Assessing and Improving the quality of metagenomic assemblies☆31Feb 21, 2022Updated 4 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- ☆13Feb 29, 2024Updated last year
- ☆34Oct 6, 2025Updated 4 months ago
- It discovers linear dependent columns and then replaces linear dependent columns with linearly independent columns that span the space o…☆15Jul 4, 2024Updated last year
- ☆20Mar 29, 2022Updated 3 years ago
- Unified Human Gut Virome Catalog☆41Nov 10, 2025Updated 3 months ago
- Discovery of conserved gene clusters in multiple genomes☆124Jan 16, 2026Updated last month
- 🧬 Efficient parallelized peta-scale protein database search☆40Jan 4, 2024Updated 2 years ago
- ☆40Dec 16, 2023Updated 2 years ago
- A pipeline for identifying conserved topologically associating domain boundaries among multiple species.☆16Jun 17, 2025Updated 8 months ago
- genome_updater is a bash script that downloads and updates (non-redundant) snapshots of the NCBI Genomes repository (RefSeq/GenBank) with…☆165Feb 11, 2026Updated 2 weeks ago
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆21Nov 25, 2025Updated 3 months ago
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Apr 23, 2021Updated 4 years ago
- Drug Resistance Prediction with Reference Graphs☆21Oct 23, 2025Updated 4 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆294Feb 3, 2026Updated 3 weeks ago
- Faultless AST for Open Biomedical Ontologies.☆29Oct 25, 2025Updated 4 months ago
- Eukaryotic genome annotation software.☆22Feb 13, 2026Updated 2 weeks ago
- ASTRAL for PaRalogs and Orthologs☆22Sep 13, 2022Updated 3 years ago
- k-mers and the like☆22Updated this week
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆235Oct 12, 2025Updated 4 months ago
- Nail is an Alignment Inference tooL☆55Feb 21, 2026Updated last week
- Rust bindings to minimap2 library☆109Updated this week
- A package to annotate protein sequences☆61Feb 23, 2025Updated last year
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆178Jan 7, 2026Updated last month
- More scalable dereplication for metagenome assembled genomes☆77Dec 17, 2025Updated 2 months ago
- OPAL: Open-community Profiling Assessment tooL☆30Jan 6, 2026Updated last month
- Comparisons of multiple different prophage predictions☆26Feb 12, 2026Updated 2 weeks ago
- SWORD - a highly efficient protein database search☆26Jan 15, 2024Updated 2 years ago
- HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors☆30Aug 26, 2024Updated last year
- Efficient and fast querying and parsing of GTDB's data☆29Aug 21, 2025Updated 6 months ago