createRNAinteractFromFiles: create an RNAinteract object from text files

In RNAinteract: Estimate Pairwise Interactions from multidimensional features

Description

Reads text files with annotation, query and template design, and data. Creates a RNAinteract object.

Usage

createRNAinteractFromFiles(name = "anonymous",
			  filePlatelist = "Platelist.txt",
		   	  fileReagents = "Reagents.txt",
		   	  fileTargets = "Targets.txt",
		   	  fileTemplateDesign = "TemplateDesign.txt",
		   	  fileQueryDesign = "QueryDesign.txt",
		   	  path = ".",
		   	  pdim = NULL,
		   	  Transformation = "log2")

Arguments

name	A name for the screen.
filePlatelist	The filename of the text file containing the plate list.
fileReagents	The filename of the text file containing the reagent annotation.
fileTargets	The filename of the text file containing the target annotation.
fileTemplateDesign	The filename of the text file containing the template design.
fileQueryDesign	The filename of the text file containing the query design.
path	The system directory were the textfiles filePlatelist, fileReagents, fileTargets, fileTemplateDesign, and fileQueryDesign are located.
pdim	The dimensions of the multi-well plates (e.g. pdim = c(nrow=24,ncol=16)). if pdim =NULL (default), the plate dimension will be estimated from the input data.
Transformation	The transformation that is applied to the data. All calculations are done on additive scale.

Details

See vignette("RNAinteract") for an example how to create an RNAinteract object.

Value

An object of class RNAinteract.

Author(s)

Bernd Fischer

References

~put references to the literature/web site here ~

See Also

RNAinteract-package, createRNAinteract, createCellHTSFromFiles

RNAinteract documentation built on Nov. 8, 2020, 5:28 p.m.