broadinstitute / genomics-in-the-cloudLinks
Source code and related materials for the O'Reilly book
☆96Updated 2 years ago
Alternatives and similar repositories for genomics-in-the-cloud
Users that are interested in genomics-in-the-cloud are comparing it to the libraries listed below
Sorting:
- simple comparison of snakemake, nextflow and cromwell/wdl☆49Updated 4 years ago
- Workflows for converting between sequence data formats☆38Updated 3 years ago
- A proof of concept of RNAseq pipeline☆77Updated last month
- Documentation and description of AWS iGenomes S3 resource.☆114Updated 7 months ago
- ☆28Updated 3 months ago
- Open workflow definitions for genomic analysis from MGI at WUSM.☆105Updated 3 weeks ago
- ☆62Updated 8 years ago
- Hail helper functions for the gnomAD project and Translational Genomics Group☆96Updated last week
- This repository contains Jupyter Notebooks containing GATK Best Practices Workflows☆26Updated 5 years ago
- Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integr…☆69Updated 3 months ago
- NGS-pipe: next-generation sequencing pipelines for precision oncology☆111Updated 6 years ago
- ☆82Updated 6 years ago
- Config files used to define parameters specific to compute environments at different Institutions☆101Updated this week
- Educational materials for learning WDL☆126Updated last year
- A small-RNA sequencing analysis pipeline☆87Updated last month
- Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools☆153Updated 2 years ago
- A modular annotation tool for genomic variants☆125Updated last month
- ☆33Updated 2 years ago
- GATK RNA-Seq Variant Calling in Nextflow☆133Updated 2 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆77Updated 5 years ago
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆56Updated 5 years ago
- Issue tracker for the Biostar Handbook☆62Updated 3 years ago
- Nextflow training material for introductory tutorial☆105Updated 3 years ago
- Workflows used for processing whole genome sequence data + germline variant calling. This Repository has been archived, please visit the …☆28Updated 4 years ago
- Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://gi…☆55Updated 5 years ago
- Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.☆130Updated 10 months ago
- AWS for Bioinformatics Researchers☆166Updated 10 months ago
- A Python package for pharmacogenomics (PGx) research☆75Updated 5 months ago
- This package scales the huge gnomAD files to a SQLite database, which is easy and fast to query. It extracts from a gnomAD vcf the minor …☆48Updated last month
- Bioinformatics workflows developed for and used on the St. Jude Cloud project.☆36Updated this week