A small, auxiliary index to massively improve parallel fastq parsing
☆32Mar 6, 2026Updated 2 months ago
Alternatives and similar repositories for mim
Users that are interested in mim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- Command line tools for IntSpan related bioinformatics operations☆12Apr 9, 2025Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆66Apr 10, 2025Updated last year
- A command line program for large scale buffering between piped programs☆17Nov 19, 2021Updated 4 years ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆24Nov 20, 2025Updated 6 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Taxonomy classification of viral sequences / contigs☆12Jul 15, 2025Updated 10 months ago
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆100May 6, 2026Updated 2 weeks ago
- MetagenOmic read Re-Assigner and abundance quantifier☆20Jan 31, 2025Updated last year
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 4 years ago
- Minimum plain text representation of kmer sets☆18Jan 30, 2025Updated last year
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21Dec 3, 2025Updated 5 months ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆44Nov 18, 2023Updated 2 years ago
- BED QC tool (in the making)☆18Aug 19, 2022Updated 3 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.
- ☆15Mar 27, 2026Updated last month
- Split a BAM file by haplotype support☆16Dec 13, 2017Updated 8 years ago
- Bitpacked sequence trait and implementation☆18Feb 27, 2026Updated 2 months ago
- Fast interval intersection library☆44Aug 20, 2025Updated 9 months ago
- ☆11Jul 3, 2022Updated 3 years ago
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 3 years ago
- Computation of average nucleotide identity with the use of MMseqs2☆24Dec 11, 2024Updated last year
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆41Sep 29, 2025Updated 7 months ago
- Approximate nearest neighbour search for microbial genomes based on hash metric☆66Mar 7, 2026Updated 2 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- ☆18Apr 18, 2026Updated last month
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Apr 24, 2025Updated last year
- Space-efficient pseudoalignment with a colored de Bruijn graph☆55Mar 13, 2025Updated last year
- Tools to gather evidence for structural variation via breakpoint detection.☆20Mar 27, 2026Updated last month
- Genome browser hub for the T2T genomes and resources☆27Apr 7, 2026Updated last month
- ☆17Jan 15, 2025Updated last year
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆73Jun 17, 2024Updated last year
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆20Jan 22, 2026Updated 3 months ago
- Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data☆74Apr 12, 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.
- ☆15Nov 30, 2023Updated 2 years ago
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆41Mar 9, 2026Updated 2 months ago
- Assembled Genomes Compressor☆180May 6, 2026Updated 2 weeks ago
- Split k-mer analysis – version 2☆104Apr 9, 2026Updated last month
- An efficient CLI to extract sequences from the SRA☆122Mar 4, 2026Updated 2 months ago
- ☆17Apr 6, 2023Updated 3 years ago
- Fast approximate string searching☆126May 12, 2026Updated last week