Joint structural variant and copy number variant caller for HiFi sequencing data
☆71Nov 4, 2025Updated 4 months ago
Alternatives and similar repositories for sawfish
Users that are interested in sawfish are comparing it to the libraries listed below
Sorting:
- Complex structural variant visualization for HiFi sequencing data☆47Oct 24, 2025Updated 4 months ago
- A local-haplotagging-based small and structural variant caller☆95Feb 27, 2026Updated last week
- Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads☆82Jan 20, 2026Updated last month
- HiFi-based caller for highly similar paralogous genes☆61Feb 27, 2026Updated last week
- somatic SV calling on matched tumor-normal co-assembly graphs☆22Aug 1, 2024Updated last year
- Kmer Analysis of Pileups for Genotyping☆37Updated this week
- A battery of methylation tools for PacBio HiFi reads☆49Dec 2, 2025Updated 3 months ago
- bioinformatics toolkit in rust☆98Feb 15, 2026Updated 3 weeks ago
- HitSV: Maximizing discovery of structural variants across sequencing technologies☆25Feb 18, 2026Updated 2 weeks ago
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆15Feb 20, 2023Updated 3 years ago
- A complete diploid human genome☆144Feb 23, 2026Updated 2 weeks ago
- SV detection tool for nanopore sequence reads☆97Jan 7, 2026Updated 2 months ago
- Copy number variant caller and depth visualization utility for PacBio HiFi reads☆48Oct 22, 2024Updated last year
- expressions on VCFs☆91Apr 19, 2025Updated 10 months 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…☆13Jan 30, 2024Updated 2 years ago
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 6 months ago
- Rust package for constructing and analyzing phylogenies. (unpolished & unmaintained)☆15May 1, 2025Updated 10 months ago
- ☆19Nov 17, 2025Updated 3 months ago
- Evaluating genome assemblies☆115Updated this week
- Simple pileup-based variant caller☆94Apr 25, 2025Updated 10 months ago
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆72Dec 14, 2025Updated 2 months ago
- Efficient low-divergence mapping of long reads in minimizer space☆69Oct 7, 2023Updated 2 years ago
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 4 months ago
- Transfer HiFi read mappings from their own assembly contigs to a standard reference☆37Dec 30, 2025Updated 2 months ago
- Tandem repeat genotyping and visualization from PacBio HiFi data☆132Dec 8, 2025Updated 3 months ago
- Easy genomic regions for short-read variant calling☆45Sep 10, 2025Updated 5 months ago
- A Rust library and command line tool for working with genomic ranges and their data.☆100May 29, 2024Updated last year
- Phased structural variant discovery in pangenomes☆39Dec 9, 2025Updated 2 months ago
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- Rust implementation of VG handle graph☆19Dec 18, 2023Updated 2 years ago
- TRGT Repeat expansion summary☆11Apr 10, 2023Updated 2 years ago
- Assemblies from HPP Year 1 production☆80May 9, 2023Updated 2 years ago
- HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of …☆241Feb 3, 2026Updated last month
- Toolkit for calling structural variants using short or long reads☆115Feb 11, 2026Updated 3 weeks ago
- Location of public benchmarking; primarily final results☆18Feb 17, 2025Updated last year
- gia: Genomic Interval Arithmetic☆66Aug 21, 2024Updated last year
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37May 29, 2025Updated 9 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Updated this week