how to use your own set of seqs as the database to search??

lonetto at CGL.UCSF.EDU lonetto at CGL.UCSF.EDU
Sun Feb 26 14:15:53 EST 1995

	we would like to be able to have a data file containing a set of
	sequences to use as a searchable database using FASTA or some other
	search program in gcg.
	how does one set up such a database in your own dir?  
There are two ways:  
1) Use a file of filenames.  This is just a list of the sequence
files you want to search.  Files in other directories must include
path information.  (See your user guide for file format, but it's
pretty simple: header ended by ".." at end of line, one filename
per line.).  Specify the library to search with "@file-of-filenames.fil".

2) You can make your own library file.  This is preferred if your personal
database is of significant size (several hundred or more sequences).  I
haven't done this in a long time, but the info should be in chapter 2 of 
the GCG user guide.

Good luck,


Mike Lonetto                                       lonetto at cgl.ucsf.edu
UCSF Dental School, Dept of Oral Biology, 513 Parnassus Avenue, HSW 604
San Francisco, CA 94143-0512

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