Workflows used for processing whole genome sequence data + germline variant calling. This Repository has been archived, please visit the link the ReadMe to obtain the latest version of the workflow.
☆28Jan 4, 2021Updated 5 years ago
Alternatives and similar repositories for gatk4-genome-processing-pipeline
Users that are interested in gatk4-genome-processing-pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Workflows for converting between sequence data formats☆40Sep 5, 2021Updated 4 years ago
- ☆19May 19, 2022Updated 4 years ago
- Workflows for germline short variant discovery with GATK4☆143May 7, 2021Updated 5 years ago
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆55Oct 29, 2020Updated 5 years ago
- Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools☆162Aug 10, 2022Updated 3 years 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.
- VarGen is an R package designed to get a list of variants related to a disease. It just need an OMIM morbid ID as input and optionally a…☆18Jan 28, 2024Updated 2 years ago
- ☆82Nov 30, 2018Updated 7 years ago
- Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://gi…☆59Mar 19, 2020Updated 6 years ago
- A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Sample☆26Updated this week
- ☆12Dec 4, 2023Updated 2 years ago
- A repository for the schemas used for the Data Repository Service.☆63Jun 10, 2026Updated last month
- A tool for diagnosing SMA in exome, genome or targeted sequencing data☆13Jul 1, 2026Updated 3 weeks ago
- Nextflow implementation of the GATK HaplotypeCaller pipeline☆13Dec 27, 2025Updated 7 months ago
- Web-site for the 2020 CRUK CC Bioinformatics Summer School (Held virtually)☆25Mar 4, 2021Updated 5 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Warp Analysis Research Pipelines☆229Updated this week
- A nextflow pipeline for calling exome CNVs☆14Jul 22, 2026Updated last week
- A single-cell and spatial RNA-seq database for Alzheimer’s Disease☆28Jul 17, 2024Updated 2 years ago
- Tests Allelic Expression data for extreme imbalance w.r.t. population☆11Oct 8, 2021Updated 4 years ago
- CLI to automate Nextflow pipeline testing☆13Dec 15, 2025Updated 7 months ago
- In-silico doublet annotation for single cell RNA sequencing data☆11Jan 7, 2026Updated 6 months ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- A structural variation pipeline for short-read sequencing☆205Updated this week
- PgRC: Pseudogenome based Read Compressor☆14Nov 20, 2024Updated last year
- 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.
- ☆20Nov 30, 2023Updated 2 years ago
- ☆12Aug 23, 2018Updated 7 years ago
- ☆10May 31, 2022Updated 4 years ago
- UseGalaxy.EU website (compiled version https://github.com/usegalaxy-eu/usegalaxy-eu.github.io)☆22Updated this week
- Fast HLA type inference from whole-genome data☆146Apr 3, 2025Updated last year
- SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data☆20Jan 24, 2022Updated 4 years ago
- A fast seed-embed-extend based sequence mapper and aligner☆23Aug 28, 2024Updated last year
- A comprehensive and intelligent clinical phasing tool☆14Dec 3, 2022Updated 3 years ago
- ☆12Sep 4, 2022Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Supporting information of 'Single-cell RNA sequencing of a European and an African lymphoblastoid cell line'☆11Feb 27, 2020Updated 6 years ago
- A versatile, fully open-source pipeline to extract phenotypic measurements from plant images☆52May 26, 2025Updated last year
- Pipeline to filter whole exome vcf files and generate a report document for clinical diagnostics.☆14Nov 11, 2019Updated 6 years ago
- WDL tools for parsing, type-checking, and more☆28May 2, 2026Updated 2 months ago
- A shiny app for metacell analysis☆11Jun 1, 2026Updated last month
- MEM mapper prototype☆13Nov 28, 2020Updated 5 years ago
- Detect key Units in mosaic Tandem Repeats from representative reads from the same locus☆10Aug 2, 2023Updated 2 years ago