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Launch AnVIL in Terra
Dockstore
Dockstore is an open platform used by the GA4GH for sharing Docker-based tools described with the Common Workflow Language (CWL), the Workflow Description Language (WDL), or Nextflow (NFL).
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Gen3
Gen3 is a cloud-based software platform for managing, analyzing, harmonizing, and sharing large datasets. Gen3 is an open source platform for developing data commons.
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Jupyter
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AnVIL API Library
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Galaxy
Access thousands of tools via an intuitive graphical user interface for processing batch analysis with Galaxy Workflows and interactive downstream visualizations.
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WDL
Batch processing of GATK and other workflows.
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R Studio
Interactive analysis with your favorite R coding platform.
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View our training guides for onboarding to the Terra analysis engine.
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Learn how to request access to AnVIL's high-value, access controlled, genomic datasets.
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Work with the AnVIL team to contribute your consortium's data to AnVIL.
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The AnVIL project's featured 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.
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This is a fully reproducible example of Processing For Variant Discovery, HaplotypeCallerGVCF, and Joint Discovery workflows based on GATK Best Practices. Launch Workspace
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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
GATK Best Practices for Somatic CNV Discovery
This workspace contains an example of the somatic copy number variation workflow, representing the Variant Discovery portion of the Somatic CNV Discovery pipeline. Launch Workspace
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
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The Optimus pipeline processes 3-prime single-cell transcriptome data from the 10X Genomics v2 (and v3) assay. sgreen下载ios
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AnVIL is continually integrating new high-value data sets, platform components and tools.
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Discover AnVIL Virtually at the Online, Global BCC 2024
The 2024 Bioinformatics Community Conference will now be virtual. AnVIL team members will join and present several virtual training workshops covering how to use Dockstore, Terra, R and Bioconductor to execute reproducible workflows in the cloud.
Dockstore: An Introduction
Dockstore is a platform for sharing portable, container-based tools and workflows written in CWL, WDL, and Nextflow. This webinar covers the basics of Dockstore, how it is useful for the community, and how to use it in your research.
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A hands-on workshop to train a beginner on the fundamental technologies used to create portable and reproducible workflows
Dockstore Fundamentals: Introduction to Docker and Descriptors for Reproducible Analysis - West Session
A hands-on workshop to train a beginner on the fundamental technologies used to create portable and reproducible workflows
R / Bioconductor in the Cloud - West Session
This session introduces R / Bioconductor in the AnVIL cloud computing environment. We cover use of the cloud as a replacement to desktop-style computing.
R / Bioconductor in the Cloud - East Session
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This training will lead users through the steps of performing reproducible genomic analysis at scale in the cloud with Dockstore and Terra.
GWAS Analysis with Galaxy in AnVIL
Attendees will use AnVIL to launch Galaxy and create, modify, and execute a Galaxy Workflow for GWAS analysis to demonstrate batch processing in Galaxy
Find and Analyze Data in the Cloud with Gen3, Dockstore and Terra
We will guide you through a research journey with the NHGRI Genomic Data Science Analysis, Visualization and Informatics Lab-space (AnVIL).
