VariantToolChest (VTC) is intended to be a powerful tool chest to analyze VCF files. I encourage anyone to contribute their tools and help improve existing tools. VTC currently provides two powerful tools: (1) SetOperator for performing powerful set operations; and (2) VarStats for various statistics on VCF files.
☆25Apr 8, 2016Updated 10 years ago
Alternatives and similar repositories for VariantToolChest
Users that are interested in VariantToolChest are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆15Jul 5, 2025Updated 11 months ago
- Program for estimating admixture proportions and doing principal component analysis of a single NGS sample☆12Aug 15, 2024Updated last year
- RNAseq pipeline for alternative splicing junctions☆15Mar 26, 2026Updated 3 months ago
- ☆15Mar 7, 2016Updated 10 years ago
- A pipeline to rapidly detect exogenous DNA integration sites using DNA or RNA paired-end sequencing data☆12Apr 25, 2023Updated 3 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A configurable de novo assembly pipeline☆30Jun 29, 2016Updated 10 years ago
- ☆13Oct 14, 2017Updated 8 years ago
- Variant Caller Analysis Dashboard and Data Management System☆36Feb 8, 2016Updated 10 years ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 11 years ago
- normalize, left-align, trim, validate and clean VCF files☆20Jul 22, 2015Updated 10 years ago
- Variant Effect Prediction for Python☆16Apr 5, 2017Updated 9 years ago
- Build components for CloudMan, Galaxy on the Cloud, or Galaxy Server☆20Jun 27, 2017Updated 9 years ago
- ☆12Feb 19, 2017Updated 9 years ago
- Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data☆20Aug 18, 2020Updated 5 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆27Jul 28, 2016Updated 9 years ago
- An ultra fast and accurate paired-end adapter trimmer that needs no a priori adapter sequences.☆22Jan 19, 2021Updated 5 years ago
- Parallel Recipes : parallel workflow execution made easy☆13Sep 1, 2015Updated 10 years ago
- Manage the visualization of large amounts of other people's [often messy] genomics data☆18Apr 10, 2016Updated 10 years ago
- Visualise interstrain recombination from environmental samples.☆28Apr 18, 2019Updated 7 years ago
- Computational Framework to reconstructing tumor clone structures☆15Mar 31, 2021Updated 5 years ago
- Consensus assembly and variant calling workflow.☆12May 26, 2015Updated 11 years ago
- Railroadtracks is a Python package to handle connected computation steps for DNA and RNA Seq.☆14Jun 22, 2015Updated 11 years ago
- a C++ API of htslib to be easily integrated and safely used. More importantly, it can be callled seamlessly in R/Python/Julia etc.☆25Jun 7, 2026Updated 3 weeks ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- program to estimate admixture coefficients from individual genotype or sequence data☆33Sep 23, 2024Updated last year
- Hagfish - assess an assembly through creative use of coverage plots☆36Aug 9, 2012Updated 13 years ago
- Pipeline in place at the UGI for DNA level analysis☆11Aug 29, 2016Updated 9 years ago
- Hemang Parikh☆11Jan 12, 2016Updated 10 years ago
- Browser based application for viewing bam alignments☆56Dec 16, 2016Updated 9 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Mar 3, 2017Updated 9 years ago
- Docker containers that demonstrate a proof of concept bwa alignment workflow☆14Jan 13, 2015Updated 11 years ago
- SQL-like query language for the SAM/BAM file format☆30Sep 20, 2023Updated 2 years ago
- ☆23May 28, 2026Updated last month
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Subclonal Hierarchy Inference from Somatic Mutations☆21Feb 25, 2025Updated last year
- laSV is a software package that employs local assembly to detect structural variations from whole-genome high-throughput sequencing datas…☆12Sep 26, 2016Updated 9 years ago
- A synchronized bounded message queue built on Redis.☆83Oct 24, 2014Updated 11 years ago
- Q ChIP-seq peak caller☆18Jul 17, 2024Updated last year
- ☆28Mar 15, 2017Updated 9 years ago
- Multisample Variant Format ToolKit☆10Oct 12, 2021Updated 4 years ago
- De-novo Assembly Structural Variant Caller☆13Sep 15, 2016Updated 9 years ago