normalize, left-align, trim, validate and clean VCF files
☆20Jul 22, 2015Updated 11 years ago
Alternatives and similar repositories for vcftidy
Users that are interested in vcftidy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- probability of mendelian error in trios.☆11Jan 27, 2016Updated 10 years ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 11 years ago
- vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph re…☆42Sep 16, 2021Updated 5 years ago
- The python binding for D4 format☆16Oct 22, 2021Updated 4 years ago
- ☆15Mar 7, 2016Updated 10 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Stupid Simple Structural Variant View☆26Nov 21, 2016Updated 9 years ago
- efficient alignment of strings to partially ordered string graphs☆33Apr 22, 2026Updated 5 months ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Mar 3, 2017Updated 9 years ago
- A support vector machine for calling variants from next-gen sequencing data☆15Dec 12, 2013Updated 12 years ago
- perform genotype-phenotype-association tests on a VCF with logistic regression.☆20Dec 15, 2015Updated 10 years ago
- VariantToolChest (VTC) is intended to be a powerful tool chest to analyze VCF files. I encourage anyone to contribute their tools and hel…☆25Apr 8, 2016Updated 10 years ago
- De novo assembly based variant calling pipeline for Illumina short reads☆110Nov 30, 2020Updated 5 years ago
- Stupid Simple Elastic Compute Cloud☆15Dec 7, 2023Updated 2 years ago
- Parallel Recipes : parallel workflow execution made easy☆13Sep 1, 2015Updated 11 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.
- ☆13Feb 19, 2017Updated 9 years ago
- ☆36Aug 13, 2020Updated 6 years ago
- Fast Structural Variation Detection Toolbox☆19Feb 16, 2015Updated 11 years ago
- laSV is a software package that employs local assembly to detect structural variations from whole-genome high-throughput sequencing datas…☆12Sep 26, 2016Updated 10 years ago
- RTG Core: Software for alignment and analysis of next-gen sequencing data.☆52May 27, 2025Updated last year
- Manage the visualization of large amounts of other people's [often messy] genomics data☆18Apr 10, 2016Updated 10 years ago
- Simplify snpEff annotations for interesting cases☆22Feb 18, 2019Updated 7 years ago
- python stuff I use☆21Feb 16, 2026Updated 7 months ago
- Tools for producing pseudo-cgh of next-generation sequencing data☆18Sep 5, 2016Updated 10 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang☆46Jun 16, 2026Updated 3 months ago
- BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants☆25Mar 17, 2016Updated 10 years ago
- An algorithm for clonal tree reconstruction from multi-sample cancer sequencing data☆14Apr 1, 2018Updated 8 years ago
- Copy number estimation of highly duplicated sequences☆12Aug 15, 2017Updated 9 years ago
- Prioritize structural variants based on CADD scores☆29May 7, 2020Updated 6 years ago
- Flexible genotype query among 30,000+ samples whole-genome☆95Sep 4, 2019Updated 7 years ago
- An ultra fast and accurate paired-end adapter trimmer that needs no a priori adapter sequences.☆22Jan 19, 2021Updated 5 years ago
- Galaxy Github repository BETA 1. May be destroyed and recreated if post-conversion problems are found (but post-conversion commits on thi…☆12Feb 20, 2015Updated 11 years ago
- The Exome Coverage and Identification Report displays the coverage of every target region in your capture design. It also displays regio…☆14Apr 22, 2015Updated 11 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.
- Backend Server for CIViC Project☆39Jul 6, 2023Updated 3 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- Haplotype-based somatic genome simulator☆10Apr 20, 2026Updated 5 months ago
- ☆13Jan 23, 2020Updated 6 years ago
- Build components for CloudMan, Galaxy on the Cloud, or Galaxy Server☆20Jun 27, 2017Updated 9 years ago
- ☆11Dec 9, 2022Updated 3 years ago
- Portable Crystal binary distributions for Linux on x86_64☆15Mar 22, 2021Updated 5 years ago