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so many zero p-values resulted from mageck mle

I am using mle function of mageck to generate CRISPR screen results bu when I look at p-values there are so many zeros.

This is a part of my gene summary file ,

Gene summary file

what could be the problem? I appreciate any help. Thank you.

crispr mle mageck analysis
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written by buffealo • buffealo

1 answer

I've always found MLE to be quite a blackbox in terms of how it combines individual gRNAs into a single score. I would visualize the individual per-gRNA fold changes for a handful of genes and judge based on that whether these stats make sense. Maybe there's just a lot of evidence that these guides habe a strong effect here.

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written by ATpoint ATpoint

Thank you so much for your answer

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written by buffealo • buffealo

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