A minimap2 implementation with binseq inputs
☆17Dec 11, 2025Updated 3 months ago
Alternatives and similar repositories for mmr
Users that are interested in mmr are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fast sequence distance estimates☆27Mar 10, 2026Updated 2 weeks ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated 8 months ago
- A command line utilty for working with BINSEQ files☆36Feb 28, 2026Updated 3 weeks ago
- A high efficiency binary format for sequencing data☆98Feb 25, 2026Updated last month
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆20Jan 22, 2026Updated 2 months ago
- Fast and exact gap-affine partial order alignment☆59Feb 3, 2026Updated last month
- ☆19Feb 15, 2025Updated last year
- Rust package for constructing and analyzing phylogenies. (unpolished & unmaintained)☆15May 1, 2025Updated 10 months ago
- Self-contained, multi-threaded fasta/q parser☆48Mar 10, 2026Updated 2 weeks ago
- a python package for finding tandem repeats from genomic sequences☆31Mar 19, 2025Updated last year
- Rust bindings to minimap2 library☆109Mar 2, 2026Updated 3 weeks ago
- A Rust library for storing generic genomic data by sorted chromosome name☆17Sep 26, 2024Updated last year
- gpuPairHMM: Ultra-fast GPU-based PairHMM for DNA Variant Calling☆13Nov 6, 2025Updated 4 months ago
- Low level bindings and wrapper for slow5lib, an alternative for ONT Nanopore sequencing FAST5 output☆10Nov 5, 2024Updated last year
- Efficient querying of biological databases☆42Oct 27, 2025Updated 4 months ago
- ☆12Dec 1, 2021Updated 4 years ago
- Tools for working FASTQ files from sequencers (R1/R2/I1/I2)☆12Dec 6, 2024Updated last year
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- An efficient CLI to extract sequences from the SRA☆123Mar 4, 2026Updated 3 weeks ago
- ☆10Jun 9, 2025Updated 9 months ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Sep 12, 2024Updated last year
- My experimental tools on top of htslib. NOT OFFICIAL!!!☆59Sep 11, 2025Updated 6 months ago
- Taxonomy classification of viral sequences / contigs☆12Jul 15, 2025Updated 8 months ago
- Cookiecutter profile for making a NextFlow-based bioinformatics tool☆17Jul 8, 2024Updated last year
- Long read aligner for cyclic and acyclic pangenome graphs☆40Dec 20, 2023Updated 2 years ago
- Singular Genomics Demultiplexing Tool☆16Mar 5, 2024Updated 2 years ago
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- This work presents a way to write extensions in Rust and use them in Python, using sourmash as an example.☆20Oct 15, 2018Updated 7 years ago
- Open Human Genome Library☆63Dec 22, 2025Updated 3 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆65Apr 10, 2025Updated 11 months ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Sep 18, 2024Updated last year
- ATaRVa - Analysis of Tandem Repeat Variation☆17Mar 18, 2026Updated last week
- A Rust-based library for phylogenetic analysis and manipulation☆16Feb 10, 2026Updated last month
- Python Primer Design Library☆14Nov 24, 2025Updated 4 months ago
- A k-mer search engine for all Sequence Read Archive public accessions☆37Oct 29, 2024Updated last year
- bedtools-like functionality for interval sets in rust☆55Aug 5, 2025Updated 7 months ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21Dec 3, 2025Updated 3 months ago
- A Rust library for building modular, fast and compact indexes over genomic data☆12Nov 22, 2023Updated 2 years ago
- Optimal sequence-to-graph alignment with recombinations☆40Jul 25, 2025Updated 7 months ago