Summary of the National Center for Genome Analysis Support (NCGAS) 2018-2019 de Novo Transcriptome Workflow and Workshops

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2019-12-10

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https://hdl.handle.net/2022/24887

Abstract

The National Center for Genome Analysis Support (NCGAS) has held a workshop entitled "de novo Assembly of Transcriptomes using HPC Resources" three times between April 2018 and May 2019. These workshops were in serving NCGAS's mission of enabling the biological research community to analyze, understand, and make use of the genomic information now available by packaging our now seven years of experience assisting with de novo transcriptome assemblies and running High Performance Computing (HPC) resources into a documented, easily approachable workflow for our users. The workshops covered common questions and problems that our users have had in HPC (such as job handling, resource availability, data management, and troubleshooting) and in the construction of transcriptomes (such as software choices, combination of assemblies, and downstream analyses). The three-day workshops also highlighted the available resources for US scientists, concentrating heavily on available XSEDE resources for analyses, visualization, and archiving of data.

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NCGAS, Workshop Design

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Sanders, S., C. Ganote, B. Papudeshi, C. Stewart. T. Doak. (2019) “Summary of the National Center for Genome Analysis Support (NCGAS) 2018-2019 de Novo Transcriptome Workflow and Workshops”, Indiana University, Bloomington, IN. PTI Technical Report. Retrieved from http://hdl.handle.net/2022/24887

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Except where otherwise noted, the contents of this presentation are copyright of the Trustees of Indiana University. This license includes the following terms: You are free to share -to copy, distribute and transmit the work and to remix -to adapt the work under the following conditions: attribution -you must attribute the work in the manner specified by the author or licensor (but not in any way that suggests that they endorse you or your use of the work). For any reuse or distribution, you must make clear to others the license terms of this work.
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Technical reports (not peer-reviewed)