pangenome / pgvf-spec
Pangenome Graph Variation Format (PGVF)
☆18Updated 4 years ago
Related projects ⓘ
Alternatives and complementary repositories for pgvf-spec
- Extracts subgraphs or components from a graph in GFA format☆22Updated 5 months ago
- Population genetics analysis on VG☆16Updated 3 years ago
- Pipeline to evaluate pangenomes, e.g. from the variation it contains or how well reads map☆10Updated 2 years ago
- recompute GFA link overlaps☆25Updated 2 years ago
- the pangenome graph evaluator☆23Updated 3 years ago
- convert variation graph alignments to coverage maps over nodes☆21Updated this week
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆11Updated 5 years ago
- ☆15Updated 4 years ago
- Hidden Markov Model based Copy number caller☆20Updated 2 weeks ago
- Computational Pangenomics☆15Updated 2 years ago
- Convert HAL to VG☆21Updated 2 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆16Updated 3 weeks ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 6 months ago
- Long read aligner for cyclic and acyclic pangenome graphs☆35Updated 10 months ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- ☆16Updated 2 years ago
- Align subreads to ccs reads☆13Updated last year
- Prefix-renaming FASTA records really fast.☆13Updated 4 months ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆23Updated 4 months ago
- extract MSAs from genome variation graphs☆33Updated 4 years ago
- Scaffolding with assembly likelihood optimization☆20Updated 3 years ago
- PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium☆10Updated 8 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 7 months ago
- Generate random test data for bioinformatics☆25Updated 4 months ago
- ☆11Updated last week
- sequence to graph mapper☆11Updated 3 years ago
- A read alignment visualization library for long reads☆11Updated 2 years ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆19Updated 11 months ago
- ☆13Updated last year
- MEMO: MEM-based pangenome indexing for k-mer queries☆16Updated 4 months ago