Pangenome Graph Variation Format (PGVF)
☆19Sep 24, 2020Updated 6 years ago
Alternatives and similar repositories for pgvf-spec
Users that are interested in pgvf-spec are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆57May 29, 2024Updated 2 years ago
- Population genetics analysis on VG☆17Apr 22, 2021Updated 5 years ago
- the pangenome graph evaluator☆29Apr 12, 2021Updated 5 years ago
- extract MSAs from genome variation graphs☆34Mar 24, 2026Updated 6 months ago
- recompute GFA link overlaps☆26Sep 14, 2022Updated 4 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.
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆11Mar 27, 2019Updated 7 years ago
- Extracts subgraphs or components from a graph in GFA format☆24Nov 18, 2024Updated last year
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆36Aug 18, 2025Updated last year
- ☆11Dec 9, 2022Updated 3 years ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated last year
- ☆29Sep 28, 2024Updated 2 years ago
- PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium☆14Apr 5, 2025Updated last year
- Computational Pangenomics☆17Jun 1, 2022Updated 4 years ago
- Functions to compare a SV call sets against a truth set.☆32Jun 18, 2025Updated last year
- 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.
- A lightweight library for working with PAF (Pairwise mApping Format) files☆31May 25, 2026Updated 4 months ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 5 years ago
- ☆46Apr 18, 2026Updated 5 months ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- ☆19May 10, 2023Updated 3 years ago
- guix packages for bioinformatics software☆23Jan 22, 2024Updated 2 years ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆40Aug 20, 2026Updated last month
- A Julia package for handle genome graph in the GFA format.☆11Sep 2, 2022Updated 4 years ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆37Jun 12, 2025Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Pangenome graphs (review article on graph-based pangenomic methods)☆73Apr 15, 2020Updated 6 years ago
- Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.☆31Sep 19, 2022Updated 4 years ago
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 5 years ago
- Graphite - Graph-based variant adjudication☆28Feb 9, 2021Updated 5 years ago
- A tool for motif annotation and visualization in tandem repeats.☆15May 26, 2025Updated last year
- Rust binding for WFA2-lib☆10Jun 7, 2022Updated 4 years ago
- A long-read SV calling pipeline☆12Aug 13, 2021Updated 5 years ago
- PanPA is a tool for building panproteome graphs and aligning sequences back to the graphs.☆19Apr 9, 2026Updated 6 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆21Oct 12, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Method to optimally select samples for validation and resequencing☆30Apr 6, 2021Updated 5 years ago
- Wrapper over rust-htslib for building collections of BAM records for testing.☆10Dec 1, 2025Updated 10 months ago
- convert variation graph alignments to coverage maps over nodes☆28Jan 21, 2026Updated 8 months ago
- Parallel Sequence to Graph Alignment☆36Nov 26, 2022Updated 3 years ago
- Clustering tool optimized for sparse distance matrices: ~16M elements with ~190M connections clustered in minutes.☆16Sep 12, 2026Updated last month
- Genome Assembly 102☆19Apr 23, 2025Updated last year
- Graph realignment tools for structural variants☆172Dec 8, 2022Updated 3 years ago