[R] reading files with name columns and row columns
shawin
shawinkarim at gmail.com
Thu Sep 3 01:37:16 CEST 2015
dear William ,
I have an issue with R code which is :
FCP<-as.matrix(sapply(FCPval,as.numeric))
for (i in 1:rowN){if (FCP$FC[i] >= 1.5 & FCP$FC[i]<=-1.5 & FCP$p[i]<=0.05){
dfrmPFC=data.frame(matrix(Fc=FC,p=p))}
}
the error is :Error in FCP$FC : $ operator is invalid for atomic vectors
could you please help me
On Thu, Sep 3, 2015 at 12:32 AM, William Dunlap [via R] <
ml-node+s789695n4711779h48 at n4.nabble.com> wrote:
> y <- as.matrix(read.table("FILE_NAME",header=T,row.names=1))
> colnames(y) <- gsub("X","", colnames(y))
>
> Use read.table's check.names=FALSE argument so it won't mangle
> the column names instead of trying to demangle them with gsub()
> afterwards.
>
> E.g.,
> txt <- " 50% 100%\nA 5 8\nB 13 14\n"
> cat(txt)
> # 50% 100%
> #A 5 8
> #B 13 14
> read.table(text=txt, head=TRUE, row.names=1)
> # X50. X100.
> #A 5 8
> #B 13 14
> read.table(text=txt, head=TRUE, row.names=1, check.names=FALSE)
> # 50% 100%
> #A 5 8
> #B 13 14
>
>
> Bill Dunlap
> TIBCO Software
> wdunlap tibco.com
>
> On Wed, Sep 2, 2015 at 4:08 PM, Bogdan Tanasa <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=4711779&i=0>> wrote:
>
> > Thanks, Bert ! I solved the situation in the meanwhile, by using :
> >
> > y <- as.matrix(read.table("FILE_NAME",header=T,row.names=1))
> >
> > colnames(y) <- gsub("X","", colnames(y))
> >
> >
> > On Wed, Sep 2, 2015 at 3:59 PM, Bert Gunter <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=4711779&i=1>>
> > wrote:
> >
> > > Please read the Help file carefully before posting:
> > >
> > > "read.table is not the right tool for reading large matrices,
> > > especially those with many columns: it is designed to read data frames
> > > which may have columns of very different classes. Use scan instead for
> > > matrices."
> > >
> > > But the answer to your question can be found in
> > >
> > > ?make.names
> > >
> > > for what constitutes a syntactically valid name in R.
> > >
> > >
> > > Cheers,
> > > Bert
> > >
> > > Bert Gunter
> > >
> > > "Data is not information. Information is not knowledge. And knowledge
> > > is certainly not wisdom."
> > > -- Clifford Stoll
> > >
> > >
> > > On Wed, Sep 2, 2015 at 3:11 PM, Bogdan Tanasa <[hidden email]
> <http:///user/SendEmail.jtp?type=node&node=4711779&i=2>> wrote:
> > > > Dear all,
> > > >
> > > > would appreciate a piece of help with a simple question: I am
> reading
> > in
> > > R
> > > > a file that is formatted as a matrix (an example is shown below,
> > although
> > > > it is more complex, a matrix of 1000 * 1000 ):
> > > >
> > > > the names of the columns are 0, 10000, 40000, 80000, etc
> > > > the names of the rows are 0, 10000, 40000, 80000, etc
> > > >
> > > > 0 200000 400000
> > > > 0 0 0 0
> > > > 200000 0 0 0
> > > > 400000 0 0 0
> > > >
> > > > shall I use the command :
> > > >
> > > > y <- read.table("file",row.names=1, header=T)
> > > >
> > > > the results is :
> > > >
> > > >> y[1:3,1:3]
> > > > X0 X200000 X400000
> > > > 0 0 0 0
> > > > 200000 0 0 0
> > > > 400000 0 0 0
> > > >
> > > > The question is : why R adds an X to the names of the columns eg X0,
> > > > X20000, X40000, when it shall be only 0, 20000, 40000 ? thanks !
> > > >
> > > > -- bogdan
> > > >
> > > > [[alternative HTML version deleted]]
> > > >
> > > > ______________________________________________
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