Entering edit mode
4 months ago
shlo12
▴
20
Hi I am new to single cell CRISPR analysis. I ran the sequencing files on 10x cloud and have two donors (15 & 16) with three timepoints - baseline, early and late. I have filtered h5ad files for each sample and protospacer calls per cell file for each sample. how do I assign gRNA to cell , is there a tool to this? can I run scmageck or scepter on this dataset , I don't know how to assign gRNA prior to running scmageck. is there a threshold method how does it work and does anyone have code or links to tools that do this?
While you wait for answers a search brought up this analysis workflow: https://satijalab.github.io/Mixscale/