Flashlite-Trinity Version 1
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Download RO-CrateFlashlite-Trinity contains two workflows that run Trinity on the University of Queensland's HPC, Flashlite. Trinity performs de novo transcriptome assembly of RNA-seq data by combining three independent software modules Inchworm, Chrysalis and Butterfly to process RNA-seq reads. The algorithm can detect isoforms, handle paired-end reads, multiple insert sizes and strandedness. Users can run Flashlite-Trinity on single samples, or smaller samples requiring <500Gb of memory or staged Trinity which is recommended for global assemblies with multiple sample inputs. Both implementations make use of Singularity containers to install software.
Infrastructure_deployment_metadata: FlashLite (QRISCloud)
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Version 1 (earliest) Created 18th Aug 2021 at 00:17 by Tracy Chew
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Cali Willet
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Created: 18th Aug 2021 at 00:17
Last updated: 7th Sep 2021 at 07:27
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Teams: Sydney Informatics Hub
Organizations: The University of Sydney
Teams: Sydney Informatics Hub
Organizations: Australian BioCommons, The University of Sydney
https://orcid.org/0000-0003-2488-953X
Teams: Sydney Informatics Hub
Organizations: Australian BioCommons
https://orcid.org/0000-0003-0419-1476
The Australian BioCommons enhances digital life science research through world class collaborative distributed infrastructure. It aims to ensure that Australian life science research remains globally competitive, through sustained strategic leadership, research community engagement, digital service provision, training and support.
Teams: Australian BioCommons, QCIF Bioinformatics, Pawsey Supercomputing Research Centre, Sydney Informatics Hub, Janis, Melbourne Data Analytics Platform (MDAP), Galaxy Australia
Web page: https://www.biocommons.org.au/
The Australian BioCommons enhances digital life science research through world class collaborative distributed infrastructure. It aims to ensure that Australian life science research remains globally competitive, through sustained strategic leadership, research community engagement, digital service provision, training and support.
Space: Australian BioCommons
Public web page: https://www.biocommons.org.au/
The Sydney Informatics Hub is a Core Research Facility of The University of Sydney. We work towards enabling excellence in data and compute intensive research. We provide support, training, and expertise in statistics, data science, artificial intelligence, bioinformatics, software engineering, simulation, visualisation, and research computing. We are creating reusable workflows for bioinformatics on Australia's national supercompute resources & commercial cloud, as an official node of the ...
Space: Australian BioCommons
Public web page: https://www.sydney.edu.au/sydney-informatics-hub
This ARDC and BioCommons sponsored project delivers a key component of BioCommon’s vision for an ecosystem of platforms providing researchers with sophisticated data analysis and digital asset stewardship capabilities. The Bring Your Own Data (BYOD) Platform (https://www.biocommons.org.au/byod-expansion) has enabled highly accessible, highly available, highly scalable analysis and data sharing capabilities for the benefit of life science researchers nationally.
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