Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://github.com/gatk-workflows/five-dollar-genome-analysis-pipeline
☆58Mar 19, 2020Updated 6 years ago
Alternatives and similar repositories for broad-prod-wgs-germline-snps-indels
Users that are interested in broad-prod-wgs-germline-snps-indels 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 germline short variant discovery with GATK4☆139May 7, 2021Updated 4 years ago
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆57Jan 24, 2020Updated 6 years ago
- Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools☆161Aug 10, 2022Updated 3 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
- A tool to detect postzygotic single-nucleotide mosaicism from unpaired, trio, or paired samples.☆13Feb 23, 2021Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Deduplication for cfDNA sequencing data☆11Jul 5, 2017Updated 8 years ago
- Workflows used for processing whole genome sequence data + germline variant calling. This Repository has been archived, please visit the …☆28Jan 4, 2021Updated 5 years ago
- Survival Analysis for Protein-Level TCGA Analysis☆11Nov 30, 2018Updated 7 years ago
- Genomes on the Cloud, Mapping & Variant Calling Pipelines☆33Mar 24, 2017Updated 9 years ago
- barcode demultiplexing☆22Jun 4, 2019Updated 6 years ago
- FastSMC is a method to quickly and accurately estimate pairwise identical-by-descent (IBD) regions in the genome. FastSMC estimates the a…☆14Sep 2, 2021Updated 4 years ago
- Fine-mapping with infinitesimal effects☆20May 27, 2025Updated 10 months ago
- Work supporting the comparison of SnpEff and VEP effect prediction and HGVS identifiers☆11Mar 15, 2017Updated 9 years ago
- Liftover VCF files☆19Dec 10, 2016Updated 9 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Strelka2 germline and somatic small variant caller☆390Dec 29, 2021Updated 4 years ago
- ☆18Nov 15, 2021Updated 4 years ago
- Tools for early stage alignment file processing☆96Mar 12, 2019Updated 7 years ago
- 🍶 Genome assembly with short sequence reads☆25Mar 10, 2026Updated 2 weeks ago
- an R package for ancestry analysis☆37Jan 9, 2019Updated 7 years ago
- Genetic Relationship And Fingerprinting☆14Feb 6, 2023Updated 3 years ago
- This repo contains the knitr code for the paper: Gillespie, C. S., et al, 2010. Analysing yeast time course microarray data using BioCond…☆13Jan 25, 2016Updated 10 years ago
- Please consider using/contributing to https://github.com/nf-core/sarek☆41Jul 13, 2021Updated 4 years ago
- ☆25Apr 29, 2018Updated 7 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- a string to graph aligner☆41Jul 5, 2016Updated 9 years ago
- Concordance and contamination estimator for tumor–normal pairs☆59Oct 22, 2024Updated last year
- Dockerised and simplified version of SeqWare-CGP-SomaticCore☆14Mar 5, 2021Updated 5 years ago
- Generate duplex/single consensus reads to reduce sequencing noises and remove duplications☆127Oct 27, 2023Updated 2 years ago
- Fork of ricopili for development of pipeline for family-based data☆19Jun 22, 2025Updated 9 months ago
- Please consider using/contributing to https://github.com/nf-core/sarek☆18Jan 3, 2019Updated 7 years ago
- A software package for detection of copy number alterations from tumor samples☆12May 8, 2015Updated 10 years ago
- ☆11Jul 18, 2025Updated 8 months ago
- a lightweight db framework for exploring genetic variation.☆326Apr 28, 2020Updated 5 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ☆445Jun 15, 2020Updated 5 years ago
- Updated SignatureAnalyzer-GPU with mutational spectra & RNA expression compatibility.☆81Jan 20, 2026Updated 2 months ago
- genome basic statistics tool (e.g. n50, n10, ng50,...)☆15Mar 5, 2012Updated 14 years ago
- A nextflow pipeline for calling and annotating small germline variants from short DNA reads for WES and WGS data☆13Mar 23, 2026Updated last week
- my PhD thesis☆36Jul 10, 2019Updated 6 years ago
- Experimental EIGENSOFT performance improvements.☆21Nov 1, 2014Updated 11 years ago
- ☆43Feb 9, 2024Updated 2 years ago