smarco / WFA-paperView external linksLinks
Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment
☆199Mar 8, 2022Updated 3 years ago
Alternatives and similar repositories for WFA-paper
Users that are interested in WFA-paper are comparing it to the libraries listed below
Sorting:
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50May 22, 2024Updated last year
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- ☆284Dec 29, 2025Updated last month
- WFA-lib: Wavefront alignment algorithm library v2☆208Updated this week
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Jan 30, 2026Updated 2 weeks ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated last year
- 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
- Global alignment and alignment extension☆142Jun 27, 2023Updated 2 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- minimizer-space de Bruijn graphs (mdBG) for whole genome assembly☆184Sep 19, 2024Updated last year
- Parallel Sequence to Graph Alignment☆36Nov 26, 2022Updated 3 years ago
- Sequence-to-graph mapper and graph generator☆470Aug 11, 2025Updated 6 months ago
- REINDEER REad Index for abuNDancE quERy☆56Jul 6, 2025Updated 7 months ago
- C implementation of the Landau-Vishkin algorithm☆35Apr 8, 2022Updated 3 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆135Oct 26, 2025Updated 3 months ago
- Long read / genome alignment software☆311Dec 16, 2025Updated last month
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 2 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆111Oct 7, 2024Updated last year
- GBWT-based handle graph☆31Updated this week
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- A repository for generating strobemers and evalaution☆79Apr 16, 2024Updated last year
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆70Jun 17, 2024Updated last year
- Adaptive semi-global banded alignment on string graphs☆66May 4, 2018Updated 7 years ago
- Fast and accurate genomic distances using HyperLogLog☆163Jan 19, 2023Updated 3 years ago
- Assembled Genomes Compressor☆178Nov 25, 2024Updated last year
- Yet another k-mer analyzer☆158Dec 30, 2025Updated last month
- A fast K-mer counter for high-fidelity shotgun datasets☆140Jan 19, 2026Updated 3 weeks ago
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- alignment to variation graph inducer☆157Jan 20, 2026Updated 3 weeks ago
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆92Jan 29, 2026Updated 2 weeks ago
- Bayesian haplotype-based mutation calling☆323Updated this week
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆248Dec 16, 2025Updated last month
- The D4 Quantitative Data Format☆169Nov 28, 2025Updated 2 months ago
- Benchmarking pairwise aligners☆36Feb 8, 2025Updated last year
- A fast approximate aligner for long DNA sequences☆286Oct 11, 2024Updated last year
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆222Oct 23, 2025Updated 3 months ago
- Aligns short reads using dynamic seed size with strobemers☆192Updated this week