A simple Partial Order Aligner based on Lee, Grasso and Sharlow (2002), for education/demonstration purposes
☆75Jun 20, 2024Updated last year
Alternatives and similar repositories for poapy
Users that are interested in poapy are comparing it to the libraries listed below
Sorting:
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆136Feb 22, 2026Updated last month
- SIMD partial order alignment tool/library☆176Sep 21, 2025Updated 6 months ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Feb 2, 2021Updated 5 years ago
- d'accord is a non hybrid long read consensus program based on local de Bruijn graph assembly☆19Sep 12, 2018Updated 7 years ago
- A FASTA/FASTQ format parser library☆20Mar 1, 2024Updated 2 years ago
- GBZ file format for pangenome graphs☆46Updated this week
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 5 years ago
- Fast and exact gap-affine partial order alignment☆59Feb 3, 2026Updated last month
- genome variation graphs constructed from HLA GRCh38 ALTs☆23Dec 24, 2021Updated 4 years ago
- Rust implementation of VG handle graph☆19Dec 18, 2023Updated 2 years ago
- Python bindings to spoa☆22Dec 3, 2025Updated 3 months ago
- Mark duplicate reads from PacBio sequencing of an amplified library☆12Feb 26, 2025Updated last year
- A web-based, interactive pangenome visualization tool☆21Apr 10, 2023Updated 2 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆40Dec 20, 2023Updated 2 years ago
- vector illustrations of BWT based searching on small strings☆16Apr 29, 2019Updated 6 years ago
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆47Feb 12, 2026Updated last month
- Augmented Interval Tree implemented in Cython/C☆20Jan 17, 2025Updated last year
- fast easy interval overlapping for nim-lang☆29Jul 9, 2025Updated 8 months ago
- ☆15Jun 29, 2021Updated 4 years ago
- SARS-CoV-2 Deep Sequencing☆14Apr 22, 2020Updated 5 years ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆182Jul 30, 2019Updated 6 years ago
- ziglang + htslib☆21Oct 31, 2021Updated 4 years ago
- ☆286Dec 29, 2025Updated 2 months ago
- horizontal pileup☆16Nov 11, 2022Updated 3 years ago
- Stupid Simple (ba)Sh Testing - A functional software testing framwork☆23Nov 8, 2023Updated 2 years ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆55May 17, 2022Updated 3 years ago
- Reducing reference bias using multiple population reference genomes☆34May 27, 2024Updated last year
- convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.☆14Apr 21, 2023Updated 2 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Jun 17, 2022Updated 3 years ago
- Small general purpose library for C and Python with focus on bioinformatics.☆31Sep 15, 2022Updated 3 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
- Global alignment and alignment extension☆142Jun 27, 2023Updated 2 years ago
- Rust implementation of Flavia95's GFAtoVCF☆16Jan 17, 2022Updated 4 years ago
- Benchmarking data sets for haplotype reconstruction methods, sequenced with Illumina MiSeq, 454/Roche GSJunior, and Pacific Biosciences☆23Feb 21, 2020Updated 6 years ago
- ☆26Oct 31, 2019Updated 6 years ago
- collection of data structures and algorithms☆19Mar 19, 2019Updated 7 years ago
- Simple succinct data structures (in Rust)☆54Feb 12, 2026Updated last month