Description Usage Arguments Value Note Author(s) Examples
Get a subset of an alignment
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x |
An object of type |
seqs |
The sequence names to keep (or to remove if keep is
|
keep |
Whether to keep the named sequences or remove them |
start.col |
the first column to keep (columns indices start at 1) |
end.col |
the last column to keep (inclusive) |
refseq |
A character string naming the sequence in the alignment which determines the coordinates for start.col and end.col. If NULL, start.col and end.col are column indices in the multiple alignment. |
pointer.only |
If |
A new MSA object containing a subset of the original MSA.
If x is stored as a pointer and represents an unordered alignment, it may be ordered after this call. Otherwise it will not be changed.
Melissa J. Hubisz and Adam Siepel
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