An integrated web interface for cloud-based computational reproducibility using the ENCODE analysis pipeline architecture

Project SummaryAbstract This project will develop and test a publicly available web interface for executing and monitoring genomic data analysis pipelines described by the Workflow Description LanguageThe interface will be hosted on Truwl TMhttpstruwl comxD Bio s TMcommunity oriented genomic data analysis methods sharing web applicationExecuting pipelines will leverage the reproducibility framework developed by researchers at the Encyclopedia of DNA ElementsENCODEconsortium Data Coordinating Center which simplifies running pipelines in cloud environmentsThe project aims to make analysis methods accessible to and usable to the genomics community and enable biomedical researchers with limited or no computation expertise to analyze genomic data easilyBrieflyTruwl will be extended to contain a new web interface with dynamic forms for specifying pipeline inputsa backend service will be created execute and monitor compute jobsand Google Cloud Platform compute instances will be created and configured with the ENCODE reproducibility framework to execute compute jobsThe ENCODE Assay for Transposase Accessible Chromatin using sequencingATAC seqpipeline will be used as a test case for successfully executing pipelines from the new web interfaceA range of datasets and input parameters will be used to test the capabilities of the systemThis will demonstrate running an ENCODE pipeline from a publicly available web interface for the the first time and provide a pattern for making any well described genomic data analysis pipeline widely available and usable to the biomedical research community Project Narrative Genomics is key to understanding and biology and diseaseThis project will contribute to understanding of how the genome works by expanding the capabilities of biomedical researchers to effectively analyze genomic data