Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
☆27Mar 25, 2026Updated 7 months ago
Alternatives and similar repositories for pytrimal
Users that are interested in pytrimal are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.☆46Mar 24, 2026Updated 7 months ago
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Sep 1, 2026Updated last month
- A Python interface to gb-io, a fast GenBank parser written in Rust.☆25May 21, 2026Updated 5 months ago
- Cython bindings and Python interface to HMMER3.☆172Oct 19, 2026Updated last week
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆189Mar 17, 2026Updated 7 months ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.☆25Mar 7, 2026Updated 7 months ago
- Flame: Functional enrichment analysis using multiple gene lists☆13May 21, 2025Updated last year
- ☆14Dec 26, 2025Updated 10 months ago
- Fasten toolkit, for streaming operations on fastq files☆84Oct 12, 2026Updated 2 weeks ago
- Just another minhash implementation.☆13Oct 23, 2026Updated last week
- A lightweight platform-accelerated library for biological motif scanning using position weight matrices.☆64Mar 25, 2026Updated 7 months ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆23Aug 17, 2026Updated 2 months ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆54Aug 21, 2026Updated 2 months ago
- VariantStore: A Large-Scale Genomic Variant Search Index☆40Jul 9, 2021Updated 5 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- gemsparcl 💎✨ Rapid and consistent clustering of millions of genomes highlights the diversity of prokaryotic life☆19Jun 16, 2026Updated 4 months ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated last year
- ☆140Aug 29, 2024Updated 2 years ago
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆53May 5, 2026Updated 5 months ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆42Apr 17, 2024Updated 2 years ago
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆25Nov 25, 2025Updated 11 months ago
- Code, scripts, some logs and general misc. from to the RNA viruses in MetaTranscriptome discovery project.☆12Jan 5, 2023Updated 3 years ago
- Microbial Culture Media Knowledge Graph - Comprehensive collection of 10,000+ culture media recipes from major international repositories…☆12Oct 23, 2026Updated last week
- Visualize microbial evolution at the SNP level!☆18Aug 12, 2025Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆27Sep 12, 2024Updated 2 years ago
- A user-friendly pipeline for viral diversity analysis and characterization.☆16Updated this week
- Basecalling configuration prediction from FASTQ files☆34Mar 17, 2026Updated 7 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆49Jun 19, 2026Updated 4 months ago
- nf-core pipeline for data submission to ENA☆22Oct 23, 2026Updated last week
- Simple phylogenetic tree visualization python package for phylogenetic analysis☆68Sep 14, 2024Updated 2 years ago
- ☆15Dec 26, 2022Updated 3 years ago
- Nullomers Assessor: A computational method for statistical evaluation of nullomers & minimal absent words☆10Feb 20, 2023Updated 3 years ago
- Algorithm for ultra-scale multiple protein sequence alignments: 3 million ABC transporters analyzed in 5 minutes and 18 GB of RAM.☆277Sep 10, 2026Updated last month
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Physicochemical properties, indices and descriptors for amino-acid sequences.☆128Sep 4, 2025Updated last year
- Kraken extension to identify viral contigs☆10Dec 4, 2020Updated 5 years ago
- Python bindings for the TaxonKit library☆43Oct 1, 2026Updated 3 weeks ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 6 years ago
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated last year
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆54Updated this week