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Bioinformatics Workshop: Analysis of RNA-Seq Data with R/Bioconductor

Thomas Girke

Saturday, December 8, 2012
  1:30–6 p.m.


Location: Genomics Building Genomics Auditorium, RM 1102A
  Parking Information

Category: Training

Description: Description: This workshop will cover the most common RNA-Seq data analysis routines. It will include the following topics: (1) read mapping with intron/splice junction aware aligners; (2) generation of read count data for genes, exons or other genome annotation ranges; (3) normalization methods of read count data; (4) statistical tests for identifying differentially expressed genes (DEGs); (5) enrichment analysis of GO terms; and (7) visualization of read pileups using R graphics and the IGV genome browser; and (6) enrichment analysis of GO terms. Basic knowledge of the R software including sequence handling routines, as introduced in the "Introduction to R" and Basic NGS tutorials, will be expected in this workshop.  Manual for this workshop
Maximum number of participants: 40

How to sign up: send chosen workshop date, your name, email address, title of your position, lab affiliation (PI) and department information to thomas.girke@ucr.edu.

Registration fee*: no charge for participants from registered labs, $23 for UCR members, $75 for participants from external academic institutions, and $102 for participants from commercial institutions.

Laptop requirements: Participants will work during the course on a Linux cluster. Personal laptops are required to log remotely into the cluster. For this, all laptops need to have a functional wireless connection. In addition, they will need a terminal application and a SCP software for file exchange. Windows users should install for this purpose PuTTY and WinSCP. On Mac OS X systems, one can use the native terminal application and Fugu for file exchange. Linux systems usually have similar applications pre-configured.

Open to: General Public
Admission: Entry Charge:
Sponsor: Institute for Integrative Genome Biology

Contact Information:
Thomas Girke

thomas.girke@ucr.edu