VCF-kit: Assorted utilities for the variant call format
☆134Jul 10, 2025Updated 9 months ago
Alternatives and similar repositories for VCF-kit
Users that are interested in VCF-kit are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆672Mar 20, 2026Updated last month
- structural variant calling and genotyping with existing tools, but, smoothly.☆264Jun 17, 2024Updated last year
- heuristics to merge structural variant calls in VCF format.☆38Oct 6, 2016Updated 9 years ago
- Smart VCF parser DSL☆83May 24, 2022Updated 3 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆401Aug 30, 2025Updated 7 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Tools to work with variant call format files☆266Feb 23, 2026Updated 2 months ago
- Repository created to host the R package OneMap: software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and b…☆40Dec 27, 2023Updated 2 years ago
- Software for painlessly estimating average nucleotide diversity within and between populations☆161Apr 4, 2026Updated 3 weeks ago
- SMC++ infers population history from whole-genome sequence data.☆173Jan 20, 2024Updated 2 years ago
- Genomic VCF to tab-separated values☆48Mar 9, 2023Updated 3 years ago
- A python framework for inferring demography from tracts of identity by state as reported in PLoS Genetics by Harris and Nielsen (2013)☆15Aug 1, 2013Updated 12 years ago
- Population-scale genotyping using pangenome graphs☆197Jan 9, 2025Updated last year
- De novo assembly based variant calling pipeline for Illumina short reads☆110Nov 30, 2020Updated 5 years ago
- Code to compute the XP-CLR statistic to infer natural selection☆106Jun 13, 2022Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Homologizer: phasing gene copies into polyploid subgenomes☆11Feb 3, 2026Updated 2 months ago
- An R package to analyse and visualise admixture proportions from STRUCTURE, fastSTRUCTURE, TESS, ADMIXTURE etc.☆151Dec 22, 2025Updated 4 months ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆335May 27, 2025Updated 11 months ago
- defusion☆14Aug 24, 2021Updated 4 years ago
- ☆68Dec 5, 2022Updated 3 years ago
- samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.☆240Aug 11, 2021Updated 4 years ago
- Haplotype based scans for selection☆145Apr 1, 2026Updated 3 weeks ago
- pythonic wrapper for htslib☆24Aug 8, 2017Updated 8 years ago
- Structural variation and indel detection by local assembly☆255Updated this week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Tools for working with SAM/BAM data☆610Dec 22, 2024Updated last year
- Estimation of per-individual inbreeding coefficients under a probabilistic framework☆22Aug 8, 2023Updated 2 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆309Mar 18, 2024Updated 2 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated last year
- Calculates the probability of a haplotype given a population reference panel☆12Dec 9, 2024Updated last year
- ☆30Oct 14, 2022Updated 3 years ago
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆206Aug 15, 2024Updated last year
- An awk-like VCF parser☆56Jan 2, 2024Updated 2 years ago
- A variational framework for inferring population structure from SNP genotype data.☆143Jan 6, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Efficient program for calculating Extended Haplotype Homozygosity (EHH) and Integrated Haplotype Score (iHS)☆45Oct 24, 2019Updated 6 years ago
- cython + htslib == fast VCF and BCF processing☆440Feb 23, 2026Updated 2 months ago
- Read visualizer for structural variants☆84Aug 18, 2018Updated 7 years ago
- Graph realignment tools for structural variants☆167Dec 8, 2022Updated 3 years ago
- Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file☆55Dec 15, 2025Updated 4 months ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆846Apr 1, 2026Updated 3 weeks ago
- for visual evaluation of read support for structural variation☆56Jun 4, 2024Updated last year