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