HPC Workshop Series (online & in-person at Indiana University): Intro to R and Denovo Assembly of Transcriptomes using HPC

They tend to fill up fast, so please apply early!

Supercomputing for Everyone Series: Introduction to R for Biologists

APPLICATION DEADLINE: None - but the workshops are already over 2/3 full

In this three day workshop, learn about the basics of the R language - structure, data types, and functions - that will help you read and write R.  The first day will cover the basics of the language, the second day will cover basic visualization of mapping and ordination data, and the third day will dive into classes and writing your own functions.  A lecture and Lab will be taught on each day, February 11, 18, and 25 from 1pm - 4pm Eastern Time.

This workshop is being offered at IU-Bloomington, IUPUI, and online.  Online office hours will be provided for online participants through slack.  

For more details and registration:

IUB or online:  http://go.iu.edu/28Se 

IUPUI or online: http://go.iu.edu/28Sk 


Supercomputing for Everyone Series: de novo assembly of transcriptomes using HPC resources workshop


The National Center for Genome Analysis Support (NCGAS) at Indiana University seeks interested participants for this FREE National Science Foundation-sponsored three-day workshop.

Registration page: http://go.iu.edu/29rf 

NCGAS is offering a National Science Foundation-sponsored, three-day workshop on high performance computing (HPC) usage and de novo transcriptome assembly. It will take place April 29-May 1st 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 covers both the availability and use of 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.

Please direct questions to ss93@iu.edu.