Difference between revisions of "CMap/tool data"
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+ | <noinclude> | ||
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+ | This page stores the data that populates the [[CMap]] wiki page. | ||
+ | |||
+ | </noinclude> | ||
{{ {{{template}}} | {{ {{{template}}} | ||
| name = CMap | | name = CMap | ||
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| support = active | | support = active | ||
| type = Genome Visualization & Editing | | type = Genome Visualization & Editing | ||
− | | | + | | platform = web |
− | | logo = CMapLogo.png | + | | logo = CMapLogo-horiz.png |
| home = http://gmod.org/wiki/CMap | | home = http://gmod.org/wiki/CMap | ||
| about = A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. The CMap package also includes tools for curating map data. | | about = A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. The CMap package also includes tools for curating map data. | ||
| screenshot = Here are some sample maps from the [http://www.gramene.org/ Gramene Project]. See also [http://www.gramene.org/cmap/entry.html other Gramene views]. | | screenshot = Here are some sample maps from the [http://www.gramene.org/ Gramene Project]. See also [http://www.gramene.org/cmap/entry.html other Gramene views]. | ||
− | + | <gallery widths=200px> | |
− | + | File:Cmap_sample1.jpg | |
− | + | File:Cmap_sample2.jpg | |
+ | File:Cmap_sample3.jpg | ||
+ | </gallery> | ||
| public_server = http://www.gramene.org/cmap | | public_server = http://www.gramene.org/cmap | ||
| dl = | | dl = | ||
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Also see the [[CMap FAQ]]. | Also see the [[CMap FAQ]]. | ||
− | | papers = 19648141 | + | | papers = *CMap 1.01: a comparative mapping application for the Internet. <ref>PMID:19648141</ref> |
| presentations = | | presentations = | ||
* [[File:CMapGenomeInformatics2009.pdf|Genome Visualization and Comparison using CMap and Circos]], poster from [http://meetings.cshl.edu/meetings/info09.shtml Genome Informatics 2009] | * [[File:CMapGenomeInformatics2009.pdf|Genome Visualization and Comparison using CMap and Circos]], poster from [http://meetings.cshl.edu/meetings/info09.shtml Genome Informatics 2009] | ||
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| tutorials = | | tutorials = | ||
− | + | ;[http://www.gramene.org/tutorials/cmap.html Tutorial @ Gramene] | |
| wild_urls = The following is a partial list of groups using CMap. | | wild_urls = The following is a partial list of groups using CMap. | ||
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| mail = {{MailingListsFor|CMap}} | | mail = {{MailingListsFor|CMap}} | ||
| logo_info = The CMap logo was created by Kathy Bracken, a participant in the [[Spring 2010 Logo Program]], while a design student at [http://www.linn-benton.edu Linn-Benton Community College]. | | logo_info = The CMap logo was created by Kathy Bracken, a participant in the [[Spring 2010 Logo Program]], while a design student at [http://www.linn-benton.edu Linn-Benton Community College]. | ||
− | | dev_ppl = Lincoln Stein, Doreen Ware, [[User:Faga|Ben Faga]], [mailto:kclark@cshl.edu | + | | dev_ppl = Lincoln Stein, Doreen Ware, [[User:Faga|Ben Faga]], [mailto:kclark@cshl.edu Ken Youens-Clark] |
| dev_status = No development in several years. Future development at Gramene.org hopes to replace CMap with a lighter, Javascript version. | | dev_status = No development in several years. Future development at Gramene.org hopes to replace CMap with a lighter, Javascript version. | ||
| contact_email = Ken Youens-Clark <kclark@cshl.edu> | | contact_email = Ken Youens-Clark <kclark@cshl.edu> | ||
− | | | + | | input = |
+ | | output = | ||
| see_also = [[CMap3D]] | | see_also = [[CMap3D]] | ||
− | |||
| demo_server = | | demo_server = | ||
| survey_link = CMap | | survey_link = CMap | ||
+ | | release date = 2002 | ||
| more_info = | | more_info = | ||
}} | }} | ||
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[[Category:GMOD Components]] | [[Category:GMOD Components]] | ||
[[Category:CMap]] | [[Category:CMap]] | ||
+ | [[Category:Tool data]] |
Latest revision as of 18:31, 10 September 2013
This page stores the data that populates the CMap wiki page.
{{ {{{template}}}
| name = CMap
| full_name =
| status = mature
| dev = inactive
| support = active
| type = Genome Visualization & Editing
| platform = web
| logo = CMapLogo-horiz.png
| home = http://gmod.org/wiki/CMap
| about = A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. The CMap package also includes tools for curating map data.
| screenshot = Here are some sample maps from the Gramene Project. See also other Gramene views.
| public_server = http://www.gramene.org/cmap | dl = | dl_url = http://sourceforge.net/projects/gmod/files/cmap/ | dl_src = | dl_src_url = https://gmod.svn.sourceforge.net/svnroot/gmod/cmap | dl_dev = | dl_dev_url = | getting_started_preamble = | req =
- 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 or higher) and [GD GD.pm (2.16 or higher)]
- Various Perl modules available on CPAN
| install = | config = | doc =
- Gramene CMap User Tutorial,
- Available in both PDF and PowerPoint formats.
- CMap_API (SVN)
- README
- Changes
- INSTALL.pod
- ADMINISTRATION.pod
- CODE_OVERVIEW.pod
- TODO
- attributes-and-xrefs.pod
- CMAP Schema
- CMAP Tutorial at Texas A & M
- CMap Version 2 Design
Also see the CMap FAQ.
| papers = *CMap 1.01: a comparative mapping application for the Internet. [1] | presentations =
- File:CMapGenomeInformatics2009.pdf, poster from Genome Informatics 2009
- File:CMapGBrowseSMBE2009.pdf from the GMOD Workshop at SMBE 2009
- File:2007 11 05 CMap GMOD.ppt from November 2007 GMOD Meeting
- File:BenFaga GMOD June 2006.ppt from June 2006 GMOD Meeting
- File:Cmap-050516.pdf from May 2005 GMOD Meeting
- File:Gramene-cmap-pag-poster-2005.pdf poster form 2005 Plant and Animal Genomics meeting.
- File:Cmap update sept 03.ppt from September 2003 GMOD Meeting.
- File:CMap Overview.pdf from May 2003 GMOD Meeting.
| tutorials =
| wild_urls = The following is a partial list of groups using CMap.
- Gramene: Comparative mapping resource for grasses (plant)
- NCGR's Legume Information System: A publicly accessible legume resource that will integrate genetic and molecular data from multiple legume species and enable cross-species comparisons
- BeeBase: The Honey Bee genome database
- BASC: Brassica database
- GrainGenes
- MAGI
- Genome Database for Rosaceae
- Cotton Marker Database
- SCRI Plant Bioinformatics Group
- Pristionchus pacificus Physical Map
- Comparitive Location Database
- Soybean Breeders Toolbox
- Composite Wheat Map
- PeanutMap
- CottonDB
- TropGene
- Populus at Oak Ridge
| mail =
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 |
| logo_info = 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.
| dev_ppl = Lincoln Stein, Doreen Ware, Ben Faga, Ken Youens-Clark
| dev_status = No development in several years. Future development at Gramene.org hopes to replace CMap with a lighter, Javascript version.
| contact_email = Ken Youens-Clark <kclark@cshl.edu>
| input =
| output =
| see_also = CMap3D
| demo_server =
| survey_link = CMap
| release date = 2002
| more_info =
}}
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