PAF (pairwise alignment format) validator based on extended CIGAR strings
☆15Aug 10, 2025Updated 8 months ago
Alternatives and similar repositories for pafcheck
Users that are interested in pafcheck are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated last year
- somatic SV calling on matched tumor-normal co-assembly graphs☆22Aug 1, 2024Updated last year
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Compares pangenome graphs by calculating the segmentation distance between two GFA (Graphical Fragment Assembly) files.☆13Oct 1, 2025Updated 6 months ago
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ANI based satellite annotation☆26Mar 2, 2026Updated last month
- COsine SImilarity-based Genotyper using pangenomes☆32Feb 13, 2026Updated last month
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 5 months ago
- bioinformatics toolkit in rust☆101Feb 15, 2026Updated last month
- ☆38Oct 6, 2025Updated 6 months ago
- ☆13May 27, 2025Updated 10 months ago
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆36May 14, 2025Updated 10 months ago
- GRAph-based Finding of Individual Motif Occurrences☆31Aug 29, 2024Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Hierarchical binned indexed data store for on-disk genomic data.☆13Jan 18, 2025Updated last year
- This tools counts the number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to comp…☆30Nov 25, 2024Updated last year
- ☆10Jan 18, 2023Updated 3 years ago
- implicit pangenome graph☆98Updated this week
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆15Feb 20, 2023Updated 3 years ago
- General purpose utility related to GAF files☆29Apr 2, 2026Updated last week
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37May 29, 2025Updated 10 months ago
- A Generative Pre-Trained Transformer Package for Pangenomes☆53May 19, 2025Updated 10 months ago
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Kmer Analysis of Pileups for Genotyping☆38Mar 6, 2026Updated last month
- base-accurate DNA sequence alignments using WFA and mashmap3☆214Mar 20, 2026Updated 3 weeks ago
- Long-read aligner to pangenome graphs☆29May 20, 2024Updated last year
- Call select base modifications in PacBio HiFi reads☆16Mar 4, 2026Updated last month
- ☆19May 10, 2023Updated 2 years ago
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆40Dec 20, 2023Updated 2 years ago
- Hybrid error correction approach for long reads using overlap graph☆11Sep 26, 2023Updated 2 years ago
- ☆42Feb 15, 2026Updated last month
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Efficient low-divergence mapping of long reads in minimizer space☆69Oct 7, 2023Updated 2 years ago
- gia: Genomic Interval Arithmetic☆66Aug 21, 2024Updated last year
- Make colorful identity heatmaps of genomic sequence☆128May 24, 2024Updated last year
- syncmer graphs, and perhaps other sorts of sequence graphs☆33Apr 1, 2026Updated last week
- Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.☆10Jun 6, 2025Updated 10 months ago
- JTK -- a regional diploid genome assembler☆26Oct 20, 2024Updated last year
- Transformer-based sequence correction method for genome assembly polishing☆100Mar 11, 2025Updated last year