concatenate | R Documentation |
These functions concatenate separate DNA alignments into a single alignement matrix.
concatenate
is a generic with methods for:
multidna
: returns a DNAbin
matrix
multiphyDat
: returns a phyDat
object
concatenate(x, ...)
## S4 method for signature 'multidna'
concatenate(x, genes = TRUE, ...)
## S4 method for signature 'multiphyDat'
concatenate(x, genes = TRUE, ...)
x |
a multidna or a multiphyDat object. |
... |
further arguments passed to other methods (currently not used). |
genes |
an optional vector indicating the genes to retain for the concatenation; any way to subset the list in x@dna is acceptable; by default, all genes are used. |
Thibaut Jombart t.jombart@imperial.ac.uk
## simple conversion with nicely ordered output
data(woodmouse)
genes <- list(gene1=woodmouse[,1:500], gene2=woodmouse[,501:965])
x <- new("multidna", genes)
x
plot(x)
image(concatenate(x))
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