Francesca de Filippis Francesca de Filippis - 1 month ago 8
R Question

Order column in a table

I want to order the columns of a table.
My data looks like this (I have 50 samples and 150 rows in the complete table):

> histo

CD6 CD1 CD12
Actinomyces 0.03196031 0.066683743 0.04563851
Atopobium 0.01869159 0.003244536 0.00447774
Streptococcus 0.23355000 0.452131300 0.15800000
Veillonella 0.72330000 0.416600000 0.15000000
Enterococcus 0.41223300 0.755200000 0.17400000

I tried this:

> library(data.table)
> df <- read.table(file="histo.txt", row.names=1, header=T, sep="")
> setcolorder(df, c("CD1", "CD6", "CD12"))

But I got this error:

Error in setcolorder(df, c("CD1", "CD6", "CD12")) : x is not a data.table

Does anyone know how can I do?


Several ways to do this.

df <- df[c("CD1", "CD6", "CD12")]    # no need for data tables

dt <- data.table(df)                 # as per @BenBolker
setcolorder(dt,c("CD1", "CD6", "CD12"))

The difference is that with data tables you do not copy the result, you just move the rows around. This is faster with really large tables, but not significant in your case.