A very fast interval tree data structure
☆131Feb 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☆13Feb 7, 2023Updated 3 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated last year
- 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.☆100May 29, 2024Updated last year
- 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.
- drunk on perbase pileups and lua expressions☆19Nov 15, 2025Updated 4 months ago
- Fast and exact gap-affine partial order alignment☆61Mar 22, 2026Updated 2 weeks ago
- A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)☆170May 28, 2024Updated last year
- base-accurate DNA sequence alignments using WFA and mashmap3☆214Mar 20, 2026Updated 3 weeks ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Jun 26, 2024Updated last year
- ☆21Dec 26, 2025Updated 3 months ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Apr 24, 2025Updated 11 months ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 7 months ago
- A pairwise sequence aligner written in Rust☆153Jan 27, 2026Updated 2 months ago
- 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.
- A SIMD-accelerated library to compute random minimizers☆39Updated this week
- Efficient, parallel compression for terabyte-scale data☆62Feb 25, 2026Updated last month
- bioinformatics toolkit in rust☆101Feb 15, 2026Updated last month
- 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 …☆139Jun 23, 2024Updated last year
- C implementation of the Landau-Vishkin algorithm☆35Apr 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 8 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50May 22, 2024Updated last year
- Fast FASTX parsing and k-mer methods in Rust☆210Apr 2, 2026Updated last week
- Catalogue of pairwise alignment algorithms and benchmarks☆25Jan 6, 2026Updated 3 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☆179Mar 26, 2026Updated 2 weeks ago
- WFA-lib: Wavefront alignment algorithm library v2☆211Mar 18, 2026Updated 3 weeks ago
- Alignment-based gene expression quantification☆36Feb 8, 2026Updated 2 months ago
- using all the bits for echt rapid variant annotation and filtering☆156Feb 18, 2026Updated last month
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- gia: Genomic Interval Arithmetic☆66Aug 21, 2024Updated last year
- The D4 Quantitative Data Format☆172Nov 28, 2025Updated 4 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☆98Updated this week
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆198Mar 8, 2022Updated 4 years ago
- Grep for FASTQ files☆104Mar 28, 2026Updated 2 weeks ago