## Biostatistics analysis of RNA-Seq data

This course is part of the INRA training session about “bioinformatics and biostatistics analysis of RNA-seq data” and of the Biostatistics platform “Initiation à LA statistique, niveau 4”. The first session was held in Toulouse on November 18-21, 2014, the second session on April 2-3, 2015 and the third session on September 23-24, 2015. A fourth session will be held on May 18-19, 2017.

The material provided on the present webpage is related to the biostatistics part and covers the following topics:

• R and RStudio
• design of experiments
• variability
• count data normalization
• differential analysis

The material has been prepared by Ignacio Gonzales, Annick Moisan and Nathalie Villa-Vialaneix.

## Required installation for the practical application

R is needed for the practical application, as well as the following packages:

### CRAN packages

• RColorBrewer
• mixOmics
• VennDiagram

These packages can be installed using the following command line in an R console:

install.packages(c("RColorBrewer", "mixOmics", "VennDiagram"))

### Bioconductor packages

• edgeR
• limma
• HTSFilter

These packages can be installed using the following command lines in an R console:

source("http://bioconductor.org/biocLite.R")
biocLite("edgeR")

(and similarly for the other packages).

The precise versions of R and of the packages used in the practical application is given at the end (session information) of the solution of the analysis (this HTML file).