read.MIAME: Read MIAME Information into an Instance of Class 'MIAME'

In Biobase: Biobase: Base functions for Bioconductor

Description

Reads MIAME information from a file or using a widget.

Usage

read.MIAME(filename = NULL, widget = getOption("BioC")$Base$use.widgets, ...)

Arguments

filename	Filename from which to read MIAME information.
widget	Logical. If TRUE and a filename is not given, a widget is used to enter information.
...	Further arguments to scan.

Details

Notice that the MIAME class tries to cover the MIAME entries that are not covered by other classes in Bioconductor. Namely, experimental design, samples, hybridizations, normalization controls, and pre-processing information.

The function scan is used to read. The file must be a flat file with the different entries for the instance of MIAME class separated by carriage returns. The order should be: name, lab, contact, title, abstract, and url.

Alternatively a widget can be used.

Value

An object of class MIAME.

Author(s)

Rafael Irizarry <[e-mail]>

See Also

MIAME,tkMIAME

Examples

miame <- read.MIAME(widget=FALSE) ##creates an empty instance
show(miame)

Example output

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, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, 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,
    rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max, which.min

Welcome to Bioconductor

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

Experiment data
  Experimenter name:  
  Laboratory:  
  Contact information:  
  Title:  
  URL:  
  PMIDs:  
  No abstract available.

Biobase documentation built on Nov. 8, 2020, 6:52 p.m.