This package implements the Sim4 algorithm for aligning expressed DNA
with genomic sequences, described in the paper:

L. Florea, G. Hartzell, Z. Zhang, G. Rubin, and W. Miller (1998) 
"A computer program for aligning a cDNA sequence with a genomic DNA sequence."
Genome Research 8, 967-974.


Portions copyright by:

Copyright (C) 1998-2001  Liliana Florea
Copyright (C) 1998-2001  Scott Schwartz

This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; either version 2 of the License, or
(at your option) any later version.

This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.

You should have received a copy of the GNU General Public License
along with this program; if not, write to the Free Software
Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA

# The following files were written by Liliana Florea:
 
Xtend1.c
Xtend1.h
align.c
align.h
sim4.h
sim4.init.c
sim4b1.c
sim4b1.h
splice.c
splice.h

# The following files were written by Scott Schwartz:

args.c
args.h
charvec.c
charvec.h
discrim.c
discrim.h
dna.c
dna.h
encoding.c
encoding.h
libc.h
misc.c
misc.h
prnt.c
prnt.h
psublast.h
seq.c
seq.h
seq_read.c
types.h