☆286Dec 29, 2025Updated 2 months ago
Alternatives and similar repositories for GraphAligner
Users that are interested in GraphAligner are comparing it to the libraries listed below
Sorting:
- Sequence-to-graph mapper and graph generator☆473Aug 11, 2025Updated 7 months ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆247Dec 16, 2025Updated 3 months ago
- alignment to variation graph inducer☆157Mar 6, 2026Updated 2 weeks ago
- Graphical Fragment Assembly (GFA) Format Specification☆218Aug 21, 2024Updated last year
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆235Feb 10, 2026Updated last month
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37May 29, 2025Updated 9 months ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆107Jun 6, 2021Updated 4 years ago
- the pangenome graph builder☆485Mar 14, 2026Updated last week
- linearize and simplify variation graphs using blocked partial order alignment☆61Feb 25, 2026Updated 3 weeks ago
- tools for working with genome variation graphs☆1,301Updated this week
- Graphical interactive tool for the visualization of sequence graphs in GFA format.☆74Feb 19, 2019Updated 7 years ago
- ☆102Apr 22, 2024Updated last year
- base-accurate DNA sequence alignments using WFA and mashmap3☆212Updated this week
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆384Mar 11, 2026Updated last week
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- A fast approximate aligner for long DNA sequences☆287Oct 11, 2024Updated last year
- Assembled Genomes Compressor☆178Nov 25, 2024Updated last year
- Long read / genome alignment software☆310Dec 16, 2025Updated 3 months ago
- ☆62Sep 15, 2025Updated 6 months ago
- Official home of genome aligner based upon notion of Cactus graphs☆662Updated this week
- Yet another k-mer analyzer☆162Dec 30, 2025Updated 2 months ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 4 years ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆752Mar 18, 2025Updated last year
- Optimal sequence-to-graph alignment with recombinations☆40Jul 25, 2025Updated 7 months ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- An accurate aligner of long reads to a variation graph, based on co-linear chaining☆35May 23, 2025Updated 9 months ago
- Structural Variant Identification Method using Genome Assemblies☆138Sep 16, 2022Updated 3 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆308Mar 18, 2024Updated 2 years ago
- A genomic k-mer counter (and sequence utility) with nice features.☆165Jul 4, 2025Updated 8 months ago
- Pangenome-based genome inference☆162Dec 1, 2025Updated 3 months ago
- k-mer based assembly evaluation☆340Jun 28, 2024Updated last year
- GFA visualizer, GPU-accelerated using Vulkan☆76Aug 2, 2022Updated 3 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated last year
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆222Oct 23, 2025Updated 4 months ago
- A method for variant graph genotyping based on exact alignment of k-mers☆87Apr 1, 2019Updated 6 years ago
- Fast and frugal disk based k-mer counter☆326Mar 10, 2026Updated last week
- Pangenome graphs (review article on graph-based pangenomic methods)☆72Apr 15, 2020Updated 5 years ago
- SIMD partial order alignment tool/library☆176Sep 21, 2025Updated 6 months ago