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yelabucsf / scrna-parameter-estimation

Direct estimation of mean and covariance from single cell RNA seq experiments
MIT License
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Interpreting de_coef and dv_coef #10

Closed salwanbutrus closed 2 years ago

salwanbutrus commented 2 years ago

Hello,

Thank you for developing this awesome method! I am curious about the meaning of de_coef and dv_coef. Are they simply fold changes? Along with having the p-values, knowing what these coefficients mean would help me better contextualize the significance of a gene.

Best, Salwan

mincheoly commented 2 years ago

Hi!

In the simplest case of binary comparisons, they are ln(FC) in mean and variability respectively. For more complicated use cases involving replicates and covariates, they are not exactly the fold change between the two groups, but can still be interpreted in the same context.

I do have plans to convert them from ln(FC) to log2(FC) to be more in line other methods, and have clearer labels.

Thank you for your interest!

Best, Min Cheol

salwanbutrus commented 2 years ago

Great, thank you!