What is an appropriate false discovery rate?

What is an appropriate false discovery rate?

The Q-value of 49% is calculated only from P-values using no knowledge of actual true or false positives. It suggests that 49% of the accepted cell lines are false positives. Thus Q-values provide an excellent estimate of the FDR.

What is the difference between false positive rate and false discovery rate?

For example, a false positive rate of 5% means that on average 5% of the truly null features in the study will be called significant. A FDR (False Discovery rate) of 5% means that among all features called significant, 5% of these are truly null on average.

What is the purpose of the false discovery rate?

False discovery rate. The false discovery rate (FDR) is a method of conceptualizing the rate of type I errors in null hypothesis testing when conducting multiple comparisons. FDR-controlling procedures are designed to control the expected proportion of “discoveries” (rejected null hypotheses) that are false (incorrect rejections).

Can a linear model be used for false discovery?

A standard data modeling technique such as logistic regression, where the binary response would be whether the man has cancer or is healthy, using all of the gene expression levels as X X predictors would fail, as we cannot have more X X variable than data points in a linear model or generalized linear model (i.e. we can’t have P > N P > N ).

Which is an example of a false coverage rate?

The false coverage rate (FCR) is, in a sense, the FDR analog to the confidence interval. FCR indicates the average rate of false coverage, namely, not covering the true parameters, among the selected intervals.

Is the Bonferroni method too conservative for large scale hypothesis testing?

It is attractive due to its simplicity but unfortunately will end up being too conservative to be of much use for large-scale hypothesis testing. The Bonferroni method merely adjusts the α α level: αBON = α T α B O N = α T and the decision to reject or fail to reject each null hypothesis H Oi H O i is made using this reduced level.