1) Table of Contents

2) Recommended Tools for RNA-seq

    Raw Data QC and preprocessing: Fastx toolkit, Samtools, BEDTools, Htseq
    Mapping/Alignment: Bowtie, TopHat, STAR
    Differential Expression: DESeq2, edgeR, Cufflinks
    Alternative splicing: rMATS, MISO, Cufflinks

3) Pipelines for RNA-seq

4) Teaching Videos (link)

    PART III: Differential Expression
    PART III: Alternative Splicing

5) References

Last modified 7d ago