This is not hard to do. One just has to specify a sequence identity matrix
and then convert it in a spreadsheet to the complement. Only distance
matrices can be used to make the matrix. The following error message was
helpful to me:
seqcomp_W> RR_FILE must be a distance matrix;
automatically converted: new_elem = -old_elem + max_elem
>It would be very nice to have sequence identities and other parameters
that are placed in tables
>above or below a diagonal in the log file also be capable of being written
>in a square matrix format
>like they are for the .mat files that you offer for PHYLIP inputs. I
>often want to calculate
>averages, or make dendrograms for parameters that are not output to mat
>files. It takes a
>lot of time to reformat so for example i can get a calculation by excel.
>I do not have any
>other good way to calculate % identity for a lot of sequences.
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* Timothy A. Springer, Ph.D. *
* Latham Family Professor of Pathology *
* Harvard Medical School e-mail: *
* Center for Blood Research phone: 617-278-3200 *
* 200 Longwood Ave. Room 251 fax: 617-278-3232 *
* Boston MA 02115 *
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