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Question: Fisher's method of combining p-values
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gravatar for T Joshi
7.8 years ago by
T Joshi90
T Joshi90 wrote:
Hi, Is there an implementation of Fisher's method of combining p-values available as a part of package ? thanks, lau [[alternative HTML version deleted]]
ADD COMMENTlink modified 7.8 years ago by Adaikalavan Ramasamy100 • written 7.8 years ago by T Joshi90
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gravatar for Adaikalavan Ramasamy
7.8 years ago by
Adaikalavan Ramasamy100 wrote:
The statistics from Fisher's method simply sums up the p-values on log scale across the studies and multiplied by minus two. Under the null hypothesis, this follows a chisquare distribution with degrees of freedom equivalent to twice the number of studies. If you store the p-values from different studies as columns in 'pvalues.mat' where the rows are genes. Then if I remember my arithmethics correctly you have stats <- rowSums( -2*log( pvalues.mat ), na.rm=T ) Npresent <- rowSums( !is.na(pvalues.mat) ) pval <- pchisq( stats, df=2*Npresent, lower=FALSE ) Please double check. Regards, Adai Laura wrote: > Hi, > Is there an implementation of Fisher's method of combining p-values > available as a part of package ? > > thanks, > lau > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
ADD COMMENTlink written 7.8 years ago by Adaikalavan Ramasamy100
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