[R] subsetting data file by intoducing a second file

[Rui Barradas]

Hello,

Read the help page ?subset more carefully, it's argument 'select' you 
should be using:

subset(bg, select = c_bg)


Hope this helps,

Rui Barradas

Em 12-02-2013 14:29, Ozgul Inceoglu escreveu:
> Hello,
>
> I have a very data matrix and I have a file which has the names that I need to subset. However I cannot manage to subset the main file. ANy idea?
>
> bg <- read.table (file.choose(), header=T, row.names)
> bg
>            Otu00022 Otu00029 Otu00039 Otu00042 Otu00101 Otu00105 Otu00125 Otu00131 Otu00137 Otu00155 Otu00158 Otu00172 Otu00181 Otu00185 Otu00190 Otu00209 Otu00218
> Gi20Jun11  0.001217        0 0.001217        0 0.000000        0        0        0 0.001217        0        0        0        0        0 0.001217        0 0.001217
> Gi40Jun11  0.000000        0 0.000000        0 0.000000        0        0        0 0.000000        0        0        0        0        0 0.000000        0 0.000000
> Gi425Jun11 0.000000        0 0.000000        0 0.000000        0        0        0 0.000000        0        0        0        0        0 0.000000        0 0.000000
> Gi45Jun11  0.000000        0 0.000000        0 0.001513        0        0        0 0.000000        0        0        0        0        0 0.000000        0 0.000000
> Gi475Jun11 0.000000        0 0.000000        0 0.000000        0        0        0 0.000000        0        0        0        0        0 0.000000        0 0.000000
> Gi50Jun11  0.000000        0 0.000000        0 0.000000        0        0        0 0.000000        0        0        0        0        0 0.000000        0 0.000000
> ...
> #second file which has the names that I want to subset
> c_bg
>        [,1]
>    [1,] "Otu0128"
>    [2,] "Otu0218"
>    [3,] "Otu0034"
>    [4,] "Otu0257"
>    [5,] "Otu0212"
>    [6,] "Otu0279"
>    [7,] "Otu0318"
>    [8,] "Otu0266"
>    [9,] "Otu0056"
> ...
> #by using the c_bg name file, I would like to subset bg file
>
> g1<-subset(bg,colnames(bg) %in% (c_bg))
>
> # this returns me the all the column names in bg file.
>
> Thank you,
> Ö
>
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