A very fast interval tree data structure
☆132Feb 3, 2025Updated last year
Alternatives and similar repositories for coitrees
Users that are interested in coitrees are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- String algorithm visualizations☆14Feb 7, 2023Updated 3 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated 2 years ago
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Jul 27, 2023Updated 2 years ago
- A Rust library and command line tool for working with genomic ranges and their data.☆101May 29, 2024Updated 2 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- drunk on perbase pileups and lua expressions☆19Nov 15, 2025Updated 6 months ago
- Fast and exact gap-affine partial order alignment☆68Apr 25, 2026Updated last month
- A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)☆170May 28, 2024Updated 2 years ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆217Mar 20, 2026Updated 2 months ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Jun 26, 2024Updated last year
- ☆21Dec 26, 2025Updated 5 months ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29May 31, 2026Updated last week
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆144Aug 24, 2025Updated 9 months ago
- A pairwise sequence aligner written in Rust☆153May 22, 2026Updated 2 weeks ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- bioinformatics toolkit in rust☆107May 14, 2026Updated 3 weeks ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 4 years ago
- SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using …☆140Jun 23, 2024Updated last year
- Efficient, parallel compression for terabyte-scale data☆63Feb 25, 2026Updated 3 months ago
- A SIMD-accelerated library to compute random minimizers☆44Apr 6, 2026Updated 2 months ago
- C implementation of the Landau-Vishkin algorithm☆36Apr 8, 2022Updated 4 years ago
- A Rust library for storing generic genomic data by sorted chromosome name☆17Sep 26, 2024Updated last year
- Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)☆58Jan 28, 2023Updated 3 years ago
- bedtools-like functionality for interval sets in rust☆55Aug 5, 2025Updated 10 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.
- A reimplementation of the WaveFront Alignment algorithm at low memory☆51May 22, 2024Updated 2 years ago
- Fast FASTX parsing and k-mer methods in Rust☆211Apr 20, 2026Updated last month
- Catalogue of pairwise alignment algorithms and benchmarks☆25Jan 6, 2026Updated 5 months ago
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Dec 16, 2019Updated 6 years ago
- Assembled Genomes Compressor☆181May 6, 2026Updated last month
- WFA-lib: Wavefront alignment algorithm library v2☆215Mar 18, 2026Updated 2 months ago
- Alignment-based gene expression quantification☆38Feb 8, 2026Updated 4 months ago
- using all the bits for echt rapid variant annotation and filtering☆162Apr 30, 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.
- gia: Genomic Interval Arithmetic☆66Aug 21, 2024Updated last year
- The D4 Quantitative Data Format☆172Nov 28, 2025Updated 6 months ago
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆129Dec 30, 2020Updated 5 years ago
- ☆22Jul 28, 2022Updated 3 years ago
- implicit pangenome graph☆107Updated this week
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆198Mar 8, 2022Updated 4 years ago
- Grep for FASTQ files☆104Apr 30, 2026Updated last month