Fisher's method implementation

Description

Fisher's method implementation, used to combine the results from several independent tests bearing upon the same overall hypothesis.

Usage

chiCombP(Pvalues)

Arguments

Details

Pvalues will not be corrected for multiple testing. The sum of the log of the pvalues is determined (S). -2*S has a chi-square distribution with 2k degrees of freedom, where k is the number of tests being combined. A chi-square test is then performed.

Value

The chi-square final pvalue

Author(s)

Mattia Pelizzola

Examples

chiCombP(c(1e-3,1e-5,1e-2))

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> library(methylPipe)
Loading required package: GenomicRanges
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: SummarizedExperiment
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: Rsamtools
Loading required package: Biostrings
Loading required package: XVector
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/methylPipe/chiCombP.Rd_%03d_medium.png", width=480, height=480)
> ### Name: chiCombP
> ### Title: Fisher's method implementation
> ### Aliases: chiCombP
> 
> ### ** Examples
> 
> chiCombP(c(1e-3,1e-5,1e-2))
[1] 2.891208e-08
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>