lincs-cell-painting
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Evaluate profile normalization strategies
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.