AnVILWorkflow

AnVILWorkflow enables remote execution of bioinformatics workflows hosted on the Terra/AnVIL cloud platform directly from an R environment, facilitating access to large-scale genomics data and scalable computing resources.

Key Features:

• Workflow Execution: Enables submission and management of Terra-implemented workflows through conventional R functions.
• Cloud Environment Setup: Simplifies configuration of cloud computing environments for workflow execution.
• Data and Workflow Browsing: Supports browsing of available data and workflows on AnVIL.
• R and Non-R Tool Integration: Facilitates seamless integration of R and non-R tools within reproducible analysis pipelines.
• Input Formatting and Results Retrieval: Handles input data formatting and retrieval of workflow results.

Scientific Applications:

• Bulk RNA-seq Analysis: Supports transcriptome analysis using the Salmon quantification method.
• Metagenomics Analysis: Enables microbial community profiling using bioBakery workflows.
• Digital Pathology Image Processing: Facilitates computational analysis of pathology images using PathML.

Methodology:

AnVILWorkflow provides R functions that interface with Terra/AnVIL cloud resources for workflow submission, input data formatting, and results retrieval.