Daniel-Liu-c0deb0t / block-alignerView external linksLinks
SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.
☆139Jun 23, 2024Updated last year
Alternatives and similar repositories for block-aligner
Users that are interested in block-aligner are comparing it to the libraries listed below
Sorting:
- A pairwise sequence aligner written in Rust☆145Jan 27, 2026Updated 2 weeks ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Nov 18, 2023Updated 2 years ago
- Benchmarking pairwise aligners☆36Feb 8, 2025Updated last year
- WFA-lib: Wavefront alignment algorithm library v2☆208Updated this week
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Jul 27, 2023Updated 2 years ago
- GBWT in Rust☆45Dec 26, 2025Updated last month
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 3 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated last year
- Fast and exact gap-affine partial order alignment☆59Feb 3, 2026Updated last week
- FASTA and FASTQ parsing in Rust☆82Mar 14, 2025Updated 11 months ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- Rust bindings to minimap2 library☆108Feb 2, 2026Updated last week
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Jan 30, 2026Updated 2 weeks ago
- Bidirectional WFA (Paper)☆48May 20, 2024Updated last year
- A very fast interval tree data structure☆130Feb 3, 2025Updated last year
- String algorithm visualizations☆13Feb 7, 2023Updated 3 years ago
- Aligns short reads using dynamic seed size with strobemers☆192Updated this week
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated last year
- minimizer-space de Bruijn graphs (mdBG) for whole genome assembly☆184Sep 19, 2024Updated last year
- Assembled Genomes Compressor☆178Nov 25, 2024Updated last year
- Shared k-mer content between two genomes☆18Jun 21, 2023Updated 2 years ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆47Updated this week
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Jun 26, 2024Updated last year
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆129Dec 30, 2020Updated 5 years ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50May 22, 2024Updated last year
- ☆14Jan 31, 2020Updated 6 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated last year
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- Histosketching Using Little Kmers☆56May 25, 2023Updated 2 years ago
- Parallel Sequence to Graph Alignment☆36Nov 26, 2022Updated 3 years ago
- ☆21Dec 26, 2025Updated last month
- an API for intersections of genomic data☆142Jan 29, 2026Updated 2 weeks ago
- Compacted and colored de Bruijn graph construction and querying☆92Dec 7, 2025Updated 2 months ago
- ☆24Apr 2, 2021Updated 4 years ago
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆36Nov 7, 2025Updated 3 months ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆92Jan 29, 2026Updated 2 weeks ago
- Bitpacked sequence trait and implementation☆16Jan 20, 2026Updated 3 weeks ago