memory mapped multimap, multiset, and implicit interval tree based on an in-place parallel sort
☆29Jan 25, 2021Updated 5 years ago
Alternatives and similar repositories for mmmulti
Users that are interested in mmmulti are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 5 years ago
- Optimized sequence graph implementations for graph genomics☆36Updated this week
- A toolkit for exploring regions of variation in pangenomes☆15Jun 12, 2026Updated 4 months ago
- Rust bindings to the wavefront algorithm C implementation☆17Sep 20, 2022Updated 4 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated 2 years 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.
- ☆15Jun 29, 2021Updated 5 years ago
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆14Jul 20, 2023Updated 3 years ago
- linearize and simplify variation graphs using blocked partial order alignment☆67Aug 21, 2026Updated 2 months ago
- Rust implementation of VG handle graph☆19Dec 18, 2023Updated 2 years ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆36Dec 9, 2024Updated last year
- Succinct Data Structure Library 2.0☆11Oct 10, 2026Updated 2 weeks ago
- SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.☆12Sep 19, 2019Updated 7 years ago
- alignment to variation graph inducer☆165Jul 29, 2026Updated 3 months ago
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆15Feb 13, 2023Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- 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
- genome variation graphs constructed from HLA GRCh38 ALTs☆24Dec 24, 2021Updated 4 years ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆58Mar 4, 2024Updated 2 years ago
- How many distinct k-mers are there in a sequence?☆11Feb 4, 2026Updated 8 months ago
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆32Feb 15, 2021Updated 5 years ago
- Implicit Interval Tree with Interpolation Index☆43Jul 13, 2022Updated 4 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- HTSlib bindings for Crystal☆14Oct 23, 2026Updated last week
- GFA parser in Rust☆30May 26, 2023Updated 3 years ago
- a nextflow pipeline for creating a pangenome with minigraph-cactus☆16Sep 13, 2024Updated 2 years ago
- guix packages for bioinformatics software☆23Jan 22, 2024Updated 2 years ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆40Aug 20, 2026Updated 2 months ago
- The PanGenome Graph Builder☆17Jul 17, 2024Updated 2 years ago
- Implementation of the u-index☆12Jul 19, 2025Updated last year
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated 2 years ago
- GBWT-based handle graph☆37Oct 23, 2026Updated last week
- 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.
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆22Nov 24, 2024Updated last year
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated 2 years ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆17Jun 4, 2019Updated 7 years ago
- convert CHAIN format to PAF format☆15Dec 17, 2024Updated last year
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 7 years ago
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆108Updated this week
- An Illumina PE genome contig assembler, can handle large (17Gbp) complex (hexaploid) genomes.☆46Nov 25, 2022Updated 3 years ago