tRNAMINT: Class interface for the MINT output

In stela2502/BioData: The package allows to annotate a numeric data.table with col and row data

Class interface for the MINT output

Description

Class interface for the MINT output

Class interface for the MINT output

Format

R6Class object.

Value

Object of R6Class to store MINT results.

Super class

BioData::BioData -> tRNAMINT

Public fields

data

the numerical data as data.frame

samples

the sample annotation as data.frame

annotation

the row annotation as data.frame

usedObj

a multi purpose list to store whichever ananlyis results do not fit in the stats list

stats

all stats with one result for each data row

Active bindings

data

the numerical data as data.frame

samples

the sample annotation as data.frame

annotation

the row annotation as data.frame

usedObj

a multi purpose list to store whichever ananlyis results do not fit in the stats list

stats

all stats with one result for each data row

Methods

Public methods

• tRNAMINT$clone()

Inherited methods

• BioData::BioData$data()

• BioData::BioData$force.numeric()

• BioData::BioData$forceAbsoluteUniqueSample()

• BioData::BioData$initialize()

• BioData::BioData$print()

• BioData::BioData$pwd()

• BioData::BioData$rawData()

• BioData::BioData$reorder.genes()

• BioData::BioData$reorder.mds()

• BioData::BioData$reorder.samples()

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Method clone()

The objects of this class are cloneable with this method.

Usage

tRNAMINT$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

set.seed(1)
dat = data.frame( matrix(rnorm(1000),ncol=10) ) 
colnames(dat) <- paste('Sample', 1:10)
rownames(dat) <- paste( 'gene', 1:100)
samples <- data.frame(SampleID = 1:10, sname = colnames(dat) )
annotation <- data.frame( GeneID = paste( 'gene', 1:100), Start= 101:200 )
x <- tRNAMINT$new( cbind(annotation,dat), 
  Samples=samples, name="testObject",namecol='sname', outpath = "" )

stela2502/BioData documentation built on Feb. 27, 2025, 6:20 a.m.