rphast (version 1.0)

ncol.msa: MSA Sequence Length.

Description

Returns the length of sequence in an MSA alignment.

Usage

ncol.msa(x, refseq=NULL)

Arguments

x

an MSA object

refseq

character vector giving name(s) of sequence whose length to return. The default NULL implies the frame of reference of the entire alignment.

Value

• an integer vector containing the length of the named sequences. If refseq is NULL, returns the number of columns in the alignment.

See Also

msa

Examples

m <- msa(seqs=c("A--ACGTAT", "AG-AGGTAA", "AGGAGGTAG"),
         names=c("human", "mouse", "rat"))
ncol.msa(m)
ncol.msa(m, names.msa(m))