vcfdist: Accurately benchmarking phased variant calls
☆84Updated this week
Alternatives and similar repositories for vcfdist
Users that are interested in vcfdist are comparing it to the libraries listed below
Sorting:
- A local-haplotagging-based small and structural variant caller☆95Updated this week
- ☆101Apr 22, 2024Updated last year
- A tool for somatic structural variant calling using long reads☆162Oct 20, 2025Updated 4 months ago
- overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites☆34Jun 6, 2025Updated 8 months ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆106Jun 6, 2021Updated 4 years ago
- Copy number caller for long read data including SNV utilization☆69Mar 31, 2025Updated 11 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 6 months ago
- Unfazed by genomic variant phasing☆27May 26, 2024Updated last year
- A complete diploid human genome☆144Updated this week
- What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.☆36Sep 13, 2023Updated 2 years ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆41Sep 29, 2025Updated 5 months ago
- expressions on VCFs☆91Apr 19, 2025Updated 10 months ago
- Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)☆49Sep 2, 2025Updated 5 months ago
- Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads☆82Jan 20, 2026Updated last month
- Fast and accurate coordinate conversion between assemblies☆118Oct 9, 2025Updated 4 months ago
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆72Dec 14, 2025Updated 2 months ago
- Location of public benchmarking; primarily final results☆18Feb 17, 2025Updated last year
- Tools to gather evidence for structural variation via breakpoint detection.☆20Feb 21, 2026Updated last week
- Structural variant toolkit for VCFs☆397Jan 23, 2026Updated last month
- SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel☆38Apr 28, 2025Updated 10 months ago
- Wally: Visualization of aligned sequencing reads and contigs☆122Oct 9, 2025Updated 4 months ago
- Structural variant benchmark☆22Mar 4, 2025Updated 11 months ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Jun 17, 2022Updated 3 years ago
- Simple pileup-based variant caller☆94Apr 25, 2025Updated 10 months ago
- Kmer Analysis of Pileups for Genotyping☆36Jan 30, 2026Updated last month
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆38Jun 23, 2023Updated 2 years ago
- Toolkit for calling structural variants using short or long reads☆115Feb 11, 2026Updated 2 weeks ago
- Tumour-only somatic mutation calling using long reads☆28Oct 28, 2024Updated last year
- Tandem repeat genotyping with long reads☆35Sep 23, 2025Updated 5 months ago
- SNP-Assisted SV Calling and Phasing Using ONT☆25Jul 9, 2023Updated 2 years ago
- Phased structural variant discovery in pangenomes☆39Dec 9, 2025Updated 2 months ago
- Working space for the GIAB TR benchmarking project☆23Oct 24, 2024Updated last year
- ☆127Oct 18, 2023Updated 2 years ago
- Efficient low-divergence mapping of long reads in minimizer space☆69Oct 7, 2023Updated 2 years ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Sep 21, 2024Updated last year
- Detect novel (and reference) STR expansions from short-read data☆70Dec 6, 2025Updated 2 months ago
- bioinformatics toolkit in rust☆98Feb 15, 2026Updated last week
- Model files for Sentieon variant callers☆16Feb 9, 2026Updated 2 weeks ago