ekg / pafcheck
PAF (pairwise alignment format) validator based on extended CIGAR strings
☆14Updated 7 months ago
Alternatives and similar repositories for pafcheck
Users that are interested in pafcheck are comparing it to the libraries listed below
Sorting:
- MEMO: MEM-based pangenome indexing for k-mer queries☆18Updated 11 months ago
- Genome Assembly 102☆14Updated 2 weeks ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆17Updated 7 months ago
- Phasing reads with secondary alignments☆18Updated 5 months ago
- Extracts subgraphs or components from a graph in GFA format☆23Updated 5 months ago
- ☆18Updated 2 weeks ago
- ☆21Updated 5 months ago
- Efficient indexing and querying of annotations in a pangenome graph☆9Updated 6 months ago
- Prefix-renaming FASTA records really fast.☆17Updated 10 months ago
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 10 months ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆21Updated last year
- Tandem Repeats Finder: a program to analyze DNA sequences☆14Updated 2 years ago
- Better Alignments with Translated HMMER☆19Updated this week
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆12Updated 2 years ago
- Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.☆10Updated last month
- Everything but the kitchen sink☆11Updated 3 months ago
- Genotyping of copy number sensitive allele-specific haplotypes☆15Updated 2 months ago
- Very simple and configurable all-in-one dotplot program☆12Updated 2 years ago
- ☆15Updated 2 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated last year
- Pipeline to evaluate pangenomes, e.g. from the variation it contains or how well reads map☆10Updated 3 years ago
- recompute GFA link overlaps☆25Updated 2 years ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Updated last year
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆28Updated 5 months ago
- JTK -- a regional diploid genome assembler☆24Updated 6 months ago
- ClaMSA (Classify Multiple Sequence Alignments).☆13Updated 5 months ago
- ☆21Updated 3 weeks ago
- ☆18Updated 2 months ago