Fast Approximate Pattern Matching using Search Schemes
☆20Jul 11, 2026Updated 3 months ago
Alternatives and similar repositories for columba
Users that are interested in columba are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆24Mar 13, 2025Updated last year
- Phased structural variant discovery in pangenomes☆44Updated this week
- PanPA is a tool for building panproteome graphs and aligning sequences back to the graphs.☆19Apr 9, 2026Updated 6 months ago
- A Benchmark of Minimal Perfect Hash Function Algorithms.☆39Dec 20, 2022Updated 3 years ago
- ☆23Sep 22, 2026Updated 2 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash, UltraLogLog and ExaLogLog☆22Updated this week
- ☆19May 10, 2023Updated 3 years ago
- Compacted and colored de Bruijn graph construction and querying☆100Oct 1, 2026Updated last week
- ☆21Feb 15, 2025Updated last year
- ☆15Sep 5, 2025Updated last year
- Rust implementation of probminhash, superminhash and hyperloglog sketching algorithms☆31Jan 22, 2026Updated 8 months ago
- Pan-genome Seed Index☆20Jul 3, 2026Updated 3 months ago
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated 2 years ago
- ☆14Dec 26, 2025Updated 9 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Bit packed vector of integral values☆29Jan 28, 2025Updated last year
- ☆19Nov 21, 2024Updated last year
- a GFA toolkit☆13Oct 4, 2024Updated 2 years ago
- Parallel Construction of Suffix Arrays in Rust☆26Updated this week
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated 2 years ago
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated last year
- Identification of transposable element families from pangenome polymorphisms☆57Aug 11, 2026Updated 2 months ago
- GFA parser in Rust☆30May 26, 2023Updated 3 years ago
- Fast sequence distance estimates☆34Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Genomic sequence aligner☆33May 29, 2026Updated 4 months ago
- GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment☆42Apr 30, 2025Updated last year
- Hardware go brrr bounded context suffix array construction algorithm☆20Nov 1, 2023Updated 2 years ago
- A Rust crate for evaluating poker hands☆18Jun 15, 2025Updated last year
- BAM/SAM/CRAM/FASTA reader, pileup engine, BCF/BAM writing☆29Oct 5, 2026Updated last week
- Minimum Bait Cover Toolkit Syotti.☆15Jan 22, 2025Updated last year
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Jun 26, 2024Updated 2 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 4 years ago
- Tearing through FASTA/Q sequences☆41Jul 9, 2026Updated 3 months ago
- 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.
- R-Index-F Library for Pattern Matching☆12Aug 8, 2024Updated 2 years ago
- LMS algorithm for computing edit distance with SIMD optimizations☆11Mar 25, 2024Updated 2 years ago
- A pipeline for making SWIft Genomes in a Graph (SWIGG) using k-mers☆22Nov 22, 2019Updated 6 years ago
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inference☆18Nov 19, 2025Updated 10 months ago
- 🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…☆30Sep 9, 2021Updated 5 years ago
- ☆27Jun 16, 2026Updated 3 months ago
- Improved version of the Oxford Bioinformatics paper template☆34Feb 4, 2026Updated 8 months ago