compute pairwise interaction

Description

Compute the pairwise interaction term for each single experiments.

Usage

computePI(sgi)

Arguments

Details

Computes the pairwise interaction term for each single experiment. Multiple values for each gene pair are not yet summarized.

Value

An object of class RNAinteract.

Author(s)

Bernd Fischer

References

~put references to the literature/web site here ~

See Also

RNAinteract-package

Examples

data("sgi")
sgi <- computePI(sgi)
PI <- getData(sgi, type="pi", format="targetMatrix")

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)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(RNAinteract)
Loading required package: abind
Loading required package: locfit
locfit 1.5-9.1 	 2013-03-22
Loading required package: Biobase
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

Welcome to Bioconductor

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

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/RNAinteract/computePI.Rd_%03d_medium.png", width=480, height=480)
> ### Name: computePI
> ### Title: compute pairwise interaction
> ### Aliases: computePI
> ### Keywords: manip
> 
> ### ** Examples
> 
> data("sgi")
> sgi <- computePI(sgi)
> PI <- getData(sgi, type="pi", format="targetMatrix")
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>