hist.bum: Histogram of the p-value distribution with the fitted bum...

In BioNet: Routines for the functional analysis of biological networks

Description

The function plots a histogram of the p-values together with the fitted bum-model.

Usage

## S3 method for class 'bum'
hist(x, breaks=50, main="Histogram of p-values", xlab="P-values", ylab="Density", ...)

Arguments

x	Maximum likelihood estimator object of the beta-uniform mixture fit.
breaks	Breaks for the histogram.
main	An overall title for the plot.
xlab	A title for the x axis.
ylab	A title for the y axis.
...	Other graphic parameters for the plot.

Author(s)

Daniela Beisser

See Also

fitBumModel, hist.bum, bumOptim

Examples

data(pvaluesExample)
pvals <- pvaluesExample[,1]
mle <- fitBumModel(pvals, plot=FALSE)
hist(mle)

Example output

Loading required package: graph
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, sd, var, xtabs

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

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, 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,
    rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max, which.min

Loading required package: RBGL

BioNet documentation built on Nov. 8, 2020, 5:48 p.m.