Select feature variables of interest

Description

Select feature variables to be retained.

Usage

selectFeatureData(object, graphics = TRUE, fcol)

Arguments

Value

Updated MSnSet, containing only selected feature variables.

Author(s)

Laurent Gatto

Examples

library("pRolocdata")
data(hyperLOPIT2015)
## 5 first feature variables
x <- selectFeatureData(hyperLOPIT2015, fcol = 1:5)
fvarLabels(x)
## Not run: 
## select via GUI
x <- selectFeatureData(hyperLOPIT2015)
fvarLabels(x)

## End(Not run)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(MSnbase)
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, xtabs

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

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, 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, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: Biobase
Welcome to Bioconductor

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

Loading required package: mzR
Loading required package: Rcpp
Loading required package: BiocParallel
Loading required package: ProtGenerics

This is MSnbase version 1.20.7 
  Read '?MSnbase' and references therein for information
  about the package and how to get started.


Attaching package: 'MSnbase'

The following object is masked from 'package:stats':

    smooth

The following object is masked from 'package:base':

    trimws

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/MSnbase/selectFeatureData.Rd_%03d_medium.png", width=480, height=480)
> ### Name: selectFeatureData
> ### Title: Select feature variables of interest
> ### Aliases: selectFeatureData
> 
> ### ** Examples
> 
> library("pRolocdata")

This is pRolocdata version 1.10.0.
Use 'pRolocdata()' to list available data sets.
> data(hyperLOPIT2015)
> ## 5 first feature variables
> x <- selectFeatureData(hyperLOPIT2015, fcol = 1:5)
> fvarLabels(x)
[1] "entry.name"          "protein.description" "peptides.rep1"      
[4] "peptides.rep2"       "psms.rep1"          
> ## Not run: 
> ##D ## select via GUI
> ##D x <- selectFeatureData(hyperLOPIT2015)
> ##D fvarLabels(x)
> ## End(Not run)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>