Difference between revisions of "CMap"

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[http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btp458?ijkey=RH2dYR27nTL4Bw9&keytype=ref CMap 1.01: a comparative mapping application for the Internet.]  Ken Youens-Clark, Ben Faga, Immanuel V. Yap, Lincoln Stein and Doreen Ware, Bioinformatics 2009 25(22):3040-3042; doi:10.1093/bioinformatics/btp458.
 
[http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btp458?ijkey=RH2dYR27nTL4Bw9&keytype=ref CMap 1.01: a comparative mapping application for the Internet.]  Ken Youens-Clark, Ben Faga, Immanuel V. Yap, Lincoln Stein and Doreen Ware, Bioinformatics 2009 25(22):3040-3042; doi:10.1093/bioinformatics/btp458.
  
1Cold Spring Harbor Laboratories, Cold Spring Harbor, NY 11724, 2Department of Plant Breeding and Genetics, Cornell University, Ithaca and 3USDA-ARS NAA Plant, Soil & Nutrition Laboratory Research Unit, Ithaca, NY 14853, USA  
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# Cold Spring Harbor Laboratories, Cold Spring Harbor, NY 11724,  
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# Department of Plant Breeding and Genetics, Cornell University, Ithaca and  
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# USDA-ARS NAA Plant, Soil & Nutrition Laboratory Research Unit, Ithaca, NY 14853, USA
  
 
==Requirements==
 
==Requirements==

Revision as of 12:53, 16 August 2010

http://gmod.org/wiki/CMap#Logo}}

__NOTITLE__

Status
  • Mature release
  • Active development
  • Active support
Resources

CMap is a web-based tool that allows users to view comparisons of genetic and physical maps. The package also includes tools for curating map data.

Citation

CMap 1.01: a comparative mapping application for the Internet. Ken Youens-Clark, Ben Faga, Immanuel V. Yap, Lincoln Stein and Doreen Ware, Bioinformatics 2009 25(22):3040-3042; doi:10.1093/bioinformatics/btp458.

  1. Cold Spring Harbor Laboratories, Cold Spring Harbor, NY 11724,
  2. Department of Plant Breeding and Genetics, Cornell University, Ithaca and
  3. USDA-ARS NAA Plant, Soil & Nutrition Laboratory Research Unit, Ithaca, NY 14853, USA

Requirements

  • Perl 5.6.0 or higher
  • A web server with CGI capabilites (e.g., Apache 1.x or 2.x)
  • A relational database, e.g. MySQL (4.0+), Sybase Adaptive Server Enterprise, PostgreSQL, SQLite or Oracle (9.x)
  • libgd 2.0.28 and GD.pm 2.15
  • Various Perl modules available on CPAN


Documentation

Also see the CMap FAQ.

Presentations

Downloads

From SourceForge.


Demo & Screenshots

See the Gramene Project for a production version.


Screenshots

Here are some sample maps from the Gramene Project.


Cmap sample1.jpg


Cmap sample1t.jpg


Cmap sample2.jpg


Cmap sample2t.jpg


Cmap sample3.jpg


Cmap sample3t.jpg


Sites Using CMap

The following is a partial list of groups using CMap.

Code

Patches

  • See the SourceForge Patch List.
  • 1.0: Patched schema creation file for Postgres: {{SF_SVN|/cmap/trunk/sql/cmap.create.postgresql cmap.create.postgresql].

Mailing Lists

Mailing List Link Description Archive(s)
CMap gmod-cmap Discussion of CMap development, installation problems, etc. Nabble (2010/05+), Sourceforge
gmod-cmap-commits Notification of SVN activity for CMap. Sourceforge

Contact


The CMap logo was created by Kathy Bracken, a participant in the Spring 2010 Logo Program, while a design student at Linn-Benton Community College.