hands-on tutorial
Hands-on for 'CLIP-Seq data analysis from pre-processing to motif detection' tutorial
The questions this addresses are:
- How is raw CLIP-Seq data processed and analysed?
- How do I find binding motifs and targets for a protein (e.g., RBFOX2)?
The objectives are:
- Remove Adapters, Barcodes and Unique Molecular Identifiers (UMIs) from the reads
- Align trimmed reads with STAR
- De-duplicate the read library
- Inspect the read mapping and de-duplication quality
- Perform peak calling with PEAKachu
- Analyse the peaks and find potential binding motifs and targets
- Check the quality of the peak calling
Licence: Creative Commons Attribution 4.0 International
Keywords: transcriptomics
Target audience: Students
Resource type: hands-on tutorial
Contributors: Bérénice Batut, Daniel Maticzka, Florian Heyl
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