Why heatmap.2 in R failed to read the numeric data frame?
11,902
Function heatmap.2()
expects that x will be numeric matrix. So you need to convert your data frame dat2
to matrix with function as.matrix()
.
heatmap.2(as.matrix(dat2),symm=FALSE,trace="none")
Author by
Danf
Updated on July 02, 2022Comments
-
Danf almost 2 years
I have the following data
GOBPID Term col1 col2 col3 col4 col5 GO:0001659 temperature_homeostasis 3.49690559977475 0 0 0 0 GO:0001660 fever_generation 3.22606939096511 0 0 0 0
which I tried to read with heatmap.2 function:
library("gplots") dat <- read.table("http://dpaste.com/1486837/plain/",header=TRUE) dat <- dat[,!names(dat) %in% c("GOBPID")]; dat2 <- dat[,-1] rownames(dat2)<-dat[,1] heatmap.2(dat2,symm=FALSE,trace="none");
In my understanding it should read the data.frame correctly. But why it failed?
Error in heatmap.2(dat, symm = FALSE, trace = "none") : `x' must be a numeric matrix
Update: I find it strange because this work,
library("gplots") round(Ca <- cor(attitude), 2) heatmap.2(Ca, symm = FALSE, margins = c(6,6))
The structure of
Ca
is the same with mydat2
, no?