CRISPRGeneEffect chromosome arm correction (AC-Chronos)

Q&A
1

Hi everyone!

In this manuscript (A benchmark of computational methods for correcting biases of established and unknown origin in CRISPR-Cas9 screening data | Genome Biology | Full Text) the authors state that since the 23Q2 release, the published Chronos scores include a correction of chromosome-arm-related confounding factors (arm-corrected / AC-Chronos).
I would like to understand the impact of this correction better. However, I was not able to find mentions of that procedure in the Readme documentation of any of the recent DepMap versions. Which release versions have this procedure implemented?

Thanks,
Thomas

2

Hi Thomas, sorry for the oversight in the README. All releases from 23Q2 on have this correction. There is also an uncorrected file released, although this also does not have copy number correction or the principal component correction.