Using Example Workspaces
The AnVIL project's example workspaces demonstrate common genomic analysis pipelines deployed using data and tools available on AnVIL.
These analyses utilize unrestricted public data along with reproducible workflows, allowing researchers to clone and execute the workspaces as a learning exercise or for adapting to their own research.
GWAS Pipeline Using Hail
This workspace serves as a basic tutorial for using Hail, a python-based package containing additional data types and methods for working with genomic data. Launch Workspace
Optimus Pipeline for Analysis of 3’ Single-Cell Transcriptomic Data
inferCNV Tumor Single-Cell RNA-Seq Analysis Pipeline
The inferCNV workflow compares RNA from tumor samples with corresponding “normal” samples to identify evidence for copy number variations in tumors. Launch Workspace
GATK Best Practices for Somatic CNV Discovery
GATK Best Practices for Germline SNPs & Indels