Another new DNA alignment tool: DNA Align Editor
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Bruce Kirchoff
Jul 22, 2009, 12:02:31 PM7/22/09
to dna-align
Another visual DNA alignment tool was published in 2008, with some
similarities to DNA-Align. The link below is to the full text of the
paper, which has a link to a program download site. The tool is
Windows only.
Summary: Currently available DNA sequence alignment tools are
difficult or ineffective to use on highly polymorphic species such as
corn. To aid in refining DNA sequence alignments to correctly identify
sequence polymorphism, a new, intuitive, user-friendly sequence
alignment editing tool was developed. An intrinsic feature of the tool
is display of sequence quality to aid editing decisions. This tool
will be useful to molecular and population genetics for corn and other
highly polymorphic species enhancing speed and accuracy of
identification of sequence polymorphism for genetic marker development
and trait analysis.
http://www.biomedcentral.com/1471-2105/9/154
The authors are:
Sanchez-Villeda, Hector - UNIVERSITY OF MISSOURI
Schroeder, Steven - UNIVERSITY OF MISSOURI
Flint-Garcia, Sherry
Guill, Katherine
Yamasaki, Masanori - UNIVERSITY OF MISSOURI
McMullen, Michael
similarities to DNA-Align. The link below is to the full text of the
paper, which has a link to a program download site. The tool is
Windows only.
Summary: Currently available DNA sequence alignment tools are
difficult or ineffective to use on highly polymorphic species such as
corn. To aid in refining DNA sequence alignments to correctly identify
sequence polymorphism, a new, intuitive, user-friendly sequence
alignment editing tool was developed. An intrinsic feature of the tool
is display of sequence quality to aid editing decisions. This tool
will be useful to molecular and population genetics for corn and other
highly polymorphic species enhancing speed and accuracy of
identification of sequence polymorphism for genetic marker development
and trait analysis.
http://www.biomedcentral.com/1471-2105/9/154
The authors are:
Sanchez-Villeda, Hector - UNIVERSITY OF MISSOURI
Schroeder, Steven - UNIVERSITY OF MISSOURI
Flint-Garcia, Sherry
Guill, Katherine
Yamasaki, Masanori - UNIVERSITY OF MISSOURI
McMullen, Michael
David L. Remington DLREMING
Jul 22, 2009, 12:30:43 PM7/22/09
to dna-...@googlegroups.com
We should take a look at their program and compare features. However, if DNA Align Editor only runs in Windows (and I doubt many folks in the maize community are Mac users), our goal of having a cross-platform tool still makes it uniquely useful for the broader evolutionary biology community. This does probably mean that we need to come up with a different name, since DNA Align Editor and DNA-align are such similar names.
Dave
David Remington
Associate Professor
Department of Biology
University of North Carolina at Greensboro
P.O. Box 26170
Greensboro, NC 27402-6170
lab and office: 226 Eberhart Bldg.
tel: (336) 334-4967
e-mail: dlre...@uncg.edu
web site: http://www.uncg.edu/~dlreming
| Bruce Kirchoff <kirc...@uncg.edu>
Sent by: dna-...@googlegroups.com 07/22/2009 12:02 PM
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