uRNAList: uRNAList - class

Description uRNAList Components Author(s) Examples

Description

A list-based class (similar to the RGList class in limma package) for the storing of Agilent chips microRNA data uRNAList objects are created by read.agiMicroRna

uRNAList Components

uRNAList objects are created by new("uRNAList",Newagi) where Newagi is a list. with the following components:

uRNAList\$TGS

matrix, 'gTotalGeneSignal'

uRNAList\$TPS

matrix, 'gTotalProbeSignal'

uRNAList\$meanS

matrix, 'gMeanSignal'

uRNAList\$procS

matrix, 'gProcessedSignal'

uRNAList\$targets

data.frame, 'FileName'

uRNAList\$genes\$ProbeName

vector of characters, 'AGilent Probe Name'

uRNAList\$genes\$GeneName

vector of characters, 'microRNA Name'

uRNAList\$genes\$ControlType

vector of integers, '0'= Feature, '1'= Positive control, '-1'= Negative control

uRNAList\$other\$gIsGeneDetected

matrix, FLAG to classify signal if 'IsGeneDetected=1' or 'not=0'

uRNAList\$other\$gIsSaturated

matrix, FLAG to classify signal if 'IsSaturated = 1' or 'not=0'

uRNAList\$other\$gIsFeatPopnOL

matrix, FLAG to classify signal if 'IsFeatPopnOL = 0' or 'not=1'

uRNAList\$other\$gIsFeatNonUnifOL

matrix, FLAG to classify signal if 'gIsFeatNonUnifOL = 0' or 'not=1'

uRNAList\$other\$gBGMedianSignal

matrix, gBGMedianSignal

uRNAList\$other\$gBGUsed

matrix, gBGUsed

Author(s)

Pedro Lopez-Romero

Examples

1
2
3
4
## Not run: 
    data(dd.micro)

## End(Not run)


AgiMicroRna documentation built on May 20, 2017, 10:59 p.m.
Search within the AgiMicroRna package
Search all R packages, documentation and source code

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

Please suggest features or report bugs in the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.