Video tutorial: pooled gRNA screenining

Step 1: bcl2fastq

Link to the bcl2fastq documentation page: bcl2fastq.

Step 2: demultiplexing

Link to the cutadapt demultiplexing: demultiplexing.

For the above example, strict single matching didn’t work for two samples. Have to relax the threshold, see: https://hemtools.readthedocs.io/en/latest/content/Bioinformatics_tools/demultiplexing.html?highlight=cutadapt#relaxed-string-matching

Step 3: CRIRSPR screening pipeline

Link to CRIRSPR screening pipeline: MAGECK.

Video Part 1

Video Part 2

Step 4: Interpreting the result

Video Part 1

Video Part 2

code @ github.