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  • Monday, October 1, 2018
  • Tuesday, October 2, 2018

S4ES: de novo assembly of transcriptomes using HPC resources workshop

The National Center for Genome Analysis Support (NCGAS) offers this two-day workshop on HPC usage and de novo transcriptome assembly.

Event details

  • Date & time
    Monday, October 1, 2018
    8am-5:30pm
  • Location
    IU - Bloomington
  • Date & time
    Tuesday, October 2, 2018
    8am-5:30pm
  • Location
    IU - Bloomington
  • Deadline
    August 6, 2018

Register here

About this event

The National Center for Genome Analysis Support, or NCGAS, at Indiana University is offering a National Science Foundation-sponsored, two-day workshop on high performance computing usage and de novo transcriptome assembly. It will take place October 1-2, 2018 on the IU Bloomington campus.  Registration is free, but application is required.

The workshop will include discussions, lectures, and hands-on tutorials to cover topics important to getting started constructing and analyzing transcriptomes—without the use of a genome. Material will cover both the availability and use of high performance computing (HPC) resources, alongside the task of assembling a new transcriptome, in order to provide a more comprehensive preparation for this and future bioinformatic tasks.

Transcriptome assembly will consist of using four separate assemblers (Trinity, SOAP de novo, Velvet Oases, and TransABySS), with multiple kmers, to be combined and curated with Evigenes. This combined assembly with multiple parameters is considered much more robust than simply using one assembler, and the NCGAS pipeline streamlines the process and allows for customization if desired. 

While material will make heavy use of XSEDE and IU machines, the material is transferable to any cluster.

Use the registration link to start the application process.

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de novo assembly of transcriptomes using HPC resources workshop
participants and instructors at Indiana University, April 30-May 1, 2018

 

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