EMBL Course: Whole Transcriptome Data Analysis

This course will teach the biological researchers how to analyse biological data sets using open-source software. Most of the analysis will be performed with docker4seq package, which was developed to facilitate the use of computing demanding applications in the field of NGS data analysis. Docker4seq package uses docker containers that embed demanding computing tasks (e.g. short reads mapping) into isolated containers. This approach provides multiple advantages: the user does not need to install all the software on its local server, the results generated by different containers can be organised in pipelines and reproducible research is guarantee by the possibility of sharing the docker images used for the analysis.

Topics: Tools for RNA-seq data analysis, Experimental design, Quality control, Normalisation and data reformatting, Basic statistics, Selecting differentially regulated genes/microRNAs, Selecting alternative splicing events, Multiple testing, Biological interpretation