Data without gRNA UMI count matrix

Katsevich-Lab / sceptre

An R package for single-cell CRISPR screen data analysis emphasizing statistical rigor, massive scalability, and ease of use.

https://katsevich-lab.github.io/sceptre/

GNU General Public License v3.0

26 stars 8 forks source link

Data without gRNA UMI count matrix #141

Closed Larrycpan closed 2 months ago

Larrycpan commented 2 months ago

A very nice tool! I am dealing with perturbation data without gRNA matrix UMI count matrix (low MOI). Is it correct to manually transform the perturbation status of each cell into a binary gRNA matrix for input of the function import_data? Additionally, is it possible for SCEPTRE to handle high MOI data where gRNA UMI counts are not available? Thanks for you reply.

ekatsevi commented 2 months ago

I will convert this issue to a Discussion and address it there.