Pangenome Graph Variation Format (PGVF)
☆19Sep 24, 2020Updated 5 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☆56May 29, 2024Updated last year
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆32Aug 18, 2025Updated 7 months ago
- Population genetics analysis on VG☆17Apr 22, 2021Updated 4 years ago
- the pangenome graph evaluator☆29Apr 12, 2021Updated 4 years ago
- extract MSAs from genome variation graphs☆34Mar 3, 2026Updated 3 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆11Mar 27, 2019Updated 6 years ago
- Extracts subgraphs or components from a graph in GFA format☆24Nov 18, 2024Updated 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 8 months ago
- ☆28Sep 28, 2024Updated last year
- PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium☆12Apr 5, 2025Updated 11 months ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 3, 2022Updated 3 years ago
- Functions to compare a SV call sets against a truth set.☆30Jun 18, 2025Updated 9 months ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Computational Pangenomics☆17Jun 1, 2022Updated 3 years ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 4 years ago
- Genome Assembly 102☆17Apr 23, 2025Updated 11 months ago
- ☆42Feb 15, 2026Updated last month
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- guix packages for bioinformatics software☆23Jan 22, 2024Updated 2 years ago
- ☆19May 10, 2023Updated 2 years ago
- Pangenome graphs (review article on graph-based pangenomic methods)☆72Apr 15, 2020Updated 5 years ago
- A Julia package for handle genome graph in the GFA format.☆11Sep 2, 2022Updated 3 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37May 29, 2025Updated 9 months ago
- ☆15Jan 28, 2026Updated last month
- Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.☆32Sep 19, 2022Updated 3 years ago
- implicit pangenome graph☆98Updated this week
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Graphite - Graph-based variant adjudication☆28Feb 9, 2021Updated 5 years ago
- A long-read SV calling pipeline☆12Aug 13, 2021Updated 4 years ago
- PanPA is a tool for building panproteome graphs and aligning sequences back to the graphs.☆19Feb 26, 2026Updated last month
- Rust binding for WFA2-lib☆10Jun 7, 2022Updated 3 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- pangenome analyses for complete genomes of great apes (and gibbon)☆20Oct 12, 2024Updated last year
- A tool for motif annotation and visualization in tandem repeats.☆11May 26, 2025Updated 10 months ago
- Method to optimally select samples for validation and resequencing☆30Apr 6, 2021Updated 4 years ago
- Wrapper over rust-htslib for building collections of BAM records for testing.☆10Dec 1, 2025Updated 3 months ago
- convert variation graph alignments to coverage maps over nodes☆27Jan 21, 2026Updated 2 months ago
- Parallel Sequence to Graph Alignment☆36Nov 26, 2022Updated 3 years ago
- Graph realignment tools for structural variants☆166Dec 8, 2022Updated 3 years ago