Hi all,
I'm trying to use heat.map to display some data.
The data is originally in csv format and when I read it in R using
read.table I get:
a b c d e
1 A 1 1 1 1
2 B 1 0 1 1
3 C 0 1 0 1
4 D 1 1 1 0
5 E 1 0 0 0
The problem is, that for heatmap I need a numerical matrix. When using
data.matrix I get:
a b c d e
[1,] 1 1 1 1 1
[2,] 2 1 0 1 1
[3,] 3 0 1 0 1
[4,] 4 1 1 1 0
[5,] 5 1 0 0 0
So I get numerical... but I loss the row names. I would like to see these
names as the y axis labels.
What is the correct/easiest way of achieving this?
Many thanks!!!
--
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On Dec 10, 2009, at 8:25 AM, Liat wrote:> > Hi all, > I'm trying to use heat.map to display some data. > The data is originally in csv format and when I read it in R using > read.table I get: > a b c d e > 1 A 1 1 1 1 > 2 B 1 0 1 1 > 3 C 0 1 0 1 > 4 D 1 1 1 0 > 5 E 1 0 0 0 > The problem is, that for heatmap I need a numerical matrix. When using > data.matrix I get: > a b c d e > [1,] 1 1 1 1 1 > [2,] 2 1 0 1 1 > [3,] 3 0 1 0 1 > [4,] 4 1 1 1 0 > [5,] 5 1 0 0 0 > So I get numerical... but I loss the row names. I would like to see > these > names as the y axis labels.Look (again?) at the help page for data.matrix.> What is the correct/easiest way of achieving this? > Many thanks!!! > -- > View this message in context: http://n4.nabble.com/heatmap-image-from-csv-data-tp956968p956968.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code.David Winsemius, MD Heritage Laboratories West Hartford, CT
I have looked at the help for data.matrix. But didn't find a solution. data.matrix only gets two arguments the data and a logical rownames.force - I have tried to change this logical to TRUE but that doesn't help. Any advice would be greatly appreciated. Thanks!! Liat wrote:> > Hi all, > I'm trying to use heat.map to display some data. > The data is originally in csv format and when I read it in R using > read.table I get: > a b c d e > 1 A 1 1 1 1 > 2 B 1 0 1 1 > 3 C 0 1 0 1 > 4 D 1 1 1 0 > 5 E 1 0 0 0 > The problem is, that for heatmap I need a numerical matrix. When using > data.matrix I get: > a b c d e > [1,] 1 1 1 1 1 > [2,] 2 1 0 1 1 > [3,] 3 0 1 0 1 > [4,] 4 1 1 1 0 > [5,] 5 1 0 0 0 > So I get numerical... but I loss the row names. I would like to see these > names as the y axis labels. > What is the correct/easiest way of achieving this? > Many thanks!!! >-- View this message in context: http://n4.nabble.com/heatmap-image-from-csv-data-tp956968p957059.html Sent from the R help mailing list archive at Nabble.com.
This worked :o) Thanks very much! Liat wrote:> > Hi all, > I'm trying to use heat.map to display some data. > The data is originally in csv format and when I read it in R using > read.table I get: > a b c d e > 1 A 1 1 1 1 > 2 B 1 0 1 1 > 3 C 0 1 0 1 > 4 D 1 1 1 0 > 5 E 1 0 0 0 > The problem is, that for heatmap I need a numerical matrix. When using > data.matrix I get: > a b c d e > [1,] 1 1 1 1 1 > [2,] 2 1 0 1 1 > [3,] 3 0 1 0 1 > [4,] 4 1 1 1 0 > [5,] 5 1 0 0 0 > So I get numerical... but I loss the row names. I would like to see these > names as the y axis labels. > What is the correct/easiest way of achieving this? > Many thanks!!! >-- View this message in context: http://n4.nabble.com/heatmap-image-from-csv-data-tp956968p957118.html Sent from the R help mailing list archive at Nabble.com.