AStarix: Fast and Optimal Sequence-to-Graph Aligner
☆74Dec 25, 2021Updated 4 years ago
Alternatives and similar repositories for astarix
Users that are interested in astarix are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- base-accurate DNA sequence alignments using edlib and mashmap2☆32Feb 15, 2021Updated 5 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated last year
- ☆286Dec 29, 2025Updated 3 months ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆20Oct 28, 2023Updated 2 years ago
- 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
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- linearize and simplify variation graphs using blocked partial order alignment☆62Mar 31, 2026Updated 2 weeks ago
- ☆21Nov 1, 2019Updated 6 years ago
- Bidirectional WFA (Paper)☆49May 20, 2024Updated last year
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆136Feb 22, 2026Updated last month
- ☆24Aug 25, 2025Updated 7 months ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆17Jun 4, 2019Updated 6 years ago
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 4 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Banded Striped DNA Sequence Alignment☆52May 9, 2023Updated 2 years ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆214Mar 20, 2026Updated 3 weeks ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50May 22, 2024Updated last year
- Optimized sequence graph implementations for graph genomics☆35Updated this week
- Importing vg json graphs to Python data structures.☆12Nov 11, 2020Updated 5 years ago
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆241Feb 10, 2026Updated 2 months ago
- Optimal sequence-to-graph alignment with recombinations☆40Jul 25, 2025Updated 8 months ago
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆31Apr 20, 2020Updated 5 years ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆91Feb 26, 2026Updated last month
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- GBWT-based handle graph☆32Mar 17, 2026Updated 3 weeks ago
- WFA-lib: Wavefront alignment algorithm library v2☆211Mar 18, 2026Updated 3 weeks ago
- Assembled Genomes Compressor☆179Mar 26, 2026Updated 3 weeks ago
- Library for the Handle Graph abstraction☆24Jan 15, 2026Updated 3 months ago
- Visualisation and prioritisation of genomic variants from human exome sequencing projects☆13Apr 23, 2019Updated 6 years ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆248Dec 16, 2025Updated 3 months ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆198Mar 8, 2022Updated 4 years ago
- QuickEd is a high-performance exact sequence alignment based on the bound-and-align paradigm.☆29May 5, 2025Updated 11 months ago
- An accurate aligner of long reads to a variation graph, based on co-linear chaining☆35May 23, 2025Updated 10 months ago
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- alignment to variation graph inducer☆158Updated this week
- SIMD partial order alignment tool/library☆176Sep 21, 2025Updated 6 months ago
- A pairwise sequence aligner written in Rust☆153Jan 27, 2026Updated 2 months ago
- base-level dotplots from PAF alignments☆33Sep 18, 2025Updated 6 months ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆223Oct 23, 2025Updated 5 months ago
- Code for the paper Aligning Distant Sequences to Graphs using Long Seed Sketches.☆13Nov 1, 2022Updated 3 years ago
- Substring index for paths in a graph☆61Mar 28, 2026Updated 2 weeks ago