Connexions

Sections
You are here: Home » Content » Scoring Matrices

About: Scoring Matrices

Module by: Susan Cates

View content

Metadata

Name: Scoring Matrices
ID: m11062
Language: English (en)
Summary: This module explains the general characteristics of the scoring matrices used to score sequence alignments. Guidelines are given to help the student choose which scoring scheme to choose for a given alignment, according to the characteristics of the sequences to be aligned.
Subject: Science and Technology
Keywords: bioinformatics, BLOSUM, PAM, scoring matrix, sequence alignment, substitution matrix
Document Type: -//CNX//DTD CNXML 0.5 plus MathML//EN
License: Creative Commons Attribution License CC-BY 1.0
Authors: Susan Cates (mscates@bioc.rice.edu)
Copyright Holders: Susan Cates (mscates@bioc.rice.edu)
Maintainers: Susan Cates (mscates@bioc.rice.edu)
Version: 2.7 (history)
Created: Feb 27, 2003 12:00 am US/Central
Revised: Sep 10, 2008 3:31 pm GMT-5

Version History

Version: 2.7 Sep 10, 2008 3:31 pm GMT-5 by Susan Cates
Changes: 
USED DIFFERENT ALGORITHM FOR PAIR-WISE SEQUENCE ALIGNMENTS
Version: 2.6 Sep 12, 2007 11:34 am GMT-5 by Susan Cates
Changes: 
included better workbench instructions
Version: 2.5 Feb 13, 2006 1:09 pm US/Central by Susan Cates
Changes: 
updated old links
Version: 2.4 Feb 9, 2005 4:56 pm US/Central by Susan Cates
Changes: 
updated links, converted questions to <exercise> and <problem> format
Version: 2.3 Feb 18, 2004 2:37 pm US/Central by Susan Cates
Changes: 
updated
Version: 2.2 Mar 3, 2003 12:00 am US/Central by Susan Cates
Changes: 
reworded last sample problem
Version: 2.1 Feb 28, 2003 12:00 am US/Central by Susan Cates
Changes: 
minor editing
Version: 2.0 Feb 27, 2003 12:00 am US/Central by Susan Cates
Changes: 
v1

How to Reuse and Attribute This Content

If you derive a copy of this content using a Connexions account and publish your version, proper attribution of the original work will be automatically done for you.

If you reuse this work elsewhere, in order to comply with the attribution requirements of the license (CC-BY 1.0), you must include

  • the authors' names: Susan Cates
  • the title of the work: Scoring Matrices
  • the Connexions URL where the work can be found: http://cnx.org/content/m11062/2.7/

See the citation section below for examples you can copy.

How to Cite and Attribute This Content

The following citation styles comply with the attribution requirements for the license (CC-BY 1.0) of this work:

American Chemical Society (ACS) Style Guide:

Cates, S. Scoring Matrices, Connexions Web site. http://cnx.org/content/m11062/2.7/, Sep 10, 2008.

American Medical Assocation (AMA) Manual of Style:

Cates S. Scoring Matrices [Connexions Web site]. September 10, 2008. Available at: http://cnx.org/content/m11062/2.7/.

American Psychological Assocation (APA) Publication Manual:

Cates, S. (2008, September 10). Scoring Matrices. Retrieved from the Connexions Web site: http://cnx.org/content/m11062/2.7/

Chicago Manual of Style (Bibliography):

Cates, Susan. "Scoring Matrices." Connexions. September 10, 2008. http://cnx.org/content/m11062/2.7/.

Chicago Manual of Style (Note):

Susan Cates, "Scoring Matrices," Connexions, September 10, 2008, http://cnx.org/content/m11062/2.7/.

Chicago Manual of Style (Reference, in Author-Date style):

Cates, S. 2008. Scoring Matrices. Connexions, September 10, 2008. http://cnx.org/content/m11062/2.7/.

Modern Languages Association (MLA) Style Manual:

Cates, Susan. Scoring Matrices. Connexions. 10 Sep. 2008 <http://cnx.org/content/m11062/2.7/>.