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Evaluate profile normalization strategies

Open gwaybio opened this issue 4 years ago • 0 comments

Currently, all profiles are normalized based on mad_robustize. We can use this repository to systematically evaluate if one strategy is better.

Rationale

As noted in https://github.com/broadinstitute/lincs-cell-painting/issues/4#issuecomment-620978559

The default in cytominer_scripts/normalize.R is robustize. I assume that I should continue using this method.

Yes. Rationale: mostly empirical – robustize resulted in higher (compared to standardize) replicate correlations of Level 4 across a few experiments we tested this in.

gwaybio avatar May 15 '20 18:05 gwaybio