CRISPER genome wide screen

Question

[rob.costa1234]

I have CRISPER seq fastq files and want to find out level of Sg RNA enrichment in mouse genome. Is there any standard work flow for such analysis. Any pointer will be useful

Thanks

Answer 1

[morovatunc]

Hi,

You can give a try to MaGeCK. Especially with their most recent update, they have implemented a pipeline that handles very raw data such fastq. Also they are quite responsive in their forum.

https://sourceforge.net/p/mageck/wiki/Home/

Hope this helps,

Best,

T.