What is the exact formula for the calculation of Fold Change (FC), p-val and q-val in Ballgown stattest?
I am looking for the exact formula for the calculation of Fold Change (FC), p-val and q-val in Ballgown stattest?
By using gexpr I got the gene expression values for the list of genes. For better understanding I tried to calculate the FC for a few genes manually but the values I obtained differed from the values given by stattest. Can you please help regarding this?
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Arindam Ghosh
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Gene exprs value which you got is in logged scale or unlogged scale. If it is logged scale then you need to check manually using formula Test-Control because log((Test)/(control)) will be log(Test)-log(control). If it is unlogged scale the Test /Control is used to calculate FC.
Hello ag1805x!
It appears that your post has been cross-posted to another site: https://support.bioconductor.org/p/106868/
This is typically not recommended as it runs the risk of annoying people in both communities.
Sorry for that!