SciApps: An Automated Platform for Processing and Distribution of Plant Genomics Data

Wang, Liya, Lu, Zhenyuan, Van Buren, Peter, Ware, Doreen (2022) SciApps: An Automated Platform for Processing and Distribution of Plant Genomics Data. Methods in Molecular Biology, 2443. pp. 197-209. ISSN 1064-3745

DOI: 10.1007/978-1-0716-2067-0_10


SciApps is an open-source, web-based platform for processing, storing, visualizing, and distributing genomic data and analysis results. Built upon the Tapis (formerly Agave) platform, SciApps brings users TB-scale of data storage via CyVerse Data Store and over one million CPUs via the Extreme Science and Engineering Discovery Environment (XSEDE) resources at Texas Advanced Computing Center (TACC). SciApps provides users ways to chain individual jobs into automated and reproducible workflows in a distributed cloud and provides a management system for data, associated metadata, individual analysis jobs, and multi-step workflows. This chapter provides examples of how to (1) submitting, managing, constructing workflows, (2) using public workflows for Bulked Segregant Analysis (BSA), (3) constructing a Data Analysis Center (DAC), and Data Coordination Center (DCC) for the plant ENCODE project.

Item Type: Paper
Subjects: bioinformatics
bioinformatics > genomics and proteomics
bioinformatics > computational biology
bioinformatics > genomics and proteomics > computers > computer hardware
organism description > plant
CSHL Authors:
Communities: CSHL labs > Ware lab
SWORD Depositor: CSHL Elements
Depositing User: CSHL Elements
Date: 2022
Date Deposited: 20 Jan 2022 15:34
Last Modified: 17 Jan 2024 19:06

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