The FreeBSD Ports Archive

FreeBSD biology : sim4

An algorithm for aligning expressed DNA with genomic sequences

 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. 

sim4 history

v. 1.12
date: 2006/05/03 23:26:34;  author: edwin;  state: Exp;  lines: +0 -2
Remove USE_REINPLACE from all categories starting with B

v. 1.11
date: 2004/03/12 13:53:23;  author: krion;  state: Exp;  lines: +7 -1
- Update to version 2003.09.21

PR:		ports/64160
Submitted by:	Liam J. Foy 

v. 1.10
date: 2004/02/05 20:37:00;  author: trevor;  state: Exp;  lines: +1 -0
Use PLIST_FILES.

Reviewed by:	marcus

v. 1.9
date: 2003/11/02 02:48:04;  author: edwin;  state: Exp;  lines: +1 -1
ports with possibly unreachable MAINTAINERs
*** addresses that seem to be dead:

PR:		ports/58694
Submitted by:	Oliver Eikemeier 

v. 1.8
date: 2003/02/21 11:01:37;  author: knu;  state: Exp;  lines: +1 -0
De-pkg-comment.

v. 1.7
date: 2002/05/04 21:45:10;  author: kris;  state: Exp;  lines: +2 -2
Update to sim4-2002.03.03 to unbreak build.

Noticed by:	bento

v. 1.6
date: 2002/01/25 13:33:00;  author: wjv;  state: Exp;  lines: +1 -1
- Update to version of 2001-12-30

v. 1.5
date: 2001/12/16 19:36:48;  author: steve;  state: Exp;  lines: +2 -2
Update to version 2001.10.12.

v. 1.4
date: 2001/02/19 12:32:57;  author: jeh;  state: Exp;  lines: +2 -2
Update to version 2001-02-06

PR:		25200
Submitted by:	Johann Visagie 

v. 1.3
date: 2000/10/26 10:19:07;  author: jeh;  state: Exp;  lines: +4 -4
Update biology/sim4 to 2000.10.19
Maintainership over to FreeBSD bio-porters mailing list

PR:		22306
Submitted by:	Johann Visagie  MAINTAINER

v. 1.2
date: 2000/09/04 02:43:57;  author: kevlo;  state: Exp;  lines: +3 -3
Update to version 2000.08.24

PR: 20897
Submitted by: MAINTAINER

v. 1.1
date: 2000/07/27 14:33:00;  author: nbm;  state: Exp;
Add sim4, an implementation of the sim4 algorithm for aligning expressed
DNA with genomic sequences

PR:		ports/20219
Submitted by:	Johann Visagie 
=============================================================================