Transcriptome analysis

This page will help you with your transcriptome analysis on SAGA. In this main folder you will find all the necessary scripts needed to run the analysis in the folder called scripts.

For the visualisation of the data you can use the files in the R_data folder on your local computer.

You can download scripts and R-files by clicking here.

You will find a detailed description under the Wiki tab on:

1. Commonly used UNIX commands
2. How to login to NeLS
3. Commonly used commands in SAGA
4. A step-by-step guide on how to run the analysis
5. How to normalize data using DESeq in R
6. Extract genome sequence using annotated positions in R
7. How to use GIT.