I am having troubles modiifying a PileUP MSF file
by hand for which I wnat, later, to obtain a
profile with PROFILEMAKE.
Basicly I am taking the MSF file, editing it manually,
and trying to use it with PROFILEMAKE. But the program
claims that the alignment is not in GCG format.
I have copied scrupously the format of the original
MSF, modified the sequence lengths according to the new
alignment and checked the document format very
carefully, but to no avail.
The only thing I cannot change are the Check values
which I just leave unaltered.
Any idea of what is happening and whether there is a
Thanks !, Lluis