uRNAList-class {AgiMicroRna} | R Documentation

## uRNAList - class

### 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

    ## Not run:
        data(dd.micro)

    ## End(Not run)

[Package AgiMicroRna version 2.38.0 Index]