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| − | * GMOD Core (Chado database and tools)<br />
| + | = Searches and retrieval options at SGD<br />http://www.yeastgenome.org/<br /> Dianna Fisk, Senior Curator<br /> = |
| − | *; [[gmod-core]]
| + | |
| − | *: the schema and tools to install it. [[[/chado_from_cvs From cvs]]]<br />
| + | '''Quick Search:''' Basic information, primarily designed for when users expect a small number of results. Located at the top of most SGD pages<br /> Person based:<br /> Colleagues (by last name)<br /> Authors (by last name, first initial)<br /> Gene based: |
| − | *; [[XORT]]
| + | |
| − | *: a tool for loading and dumping chado-xml [[[http://sourceforge.net/project/showfiles.php?group_id=27707&package_id=148718 Download]]]<br />
| + | |
| − | *; [[/gmodtools GMODTools]]
| + | |
| − | *: a collection of tools for extracting data from a chado database and formatting it in common bulk download formats (GFF, Fasta, etc) [[[/chado_from_cvs Included in schema cvs]]]<br />
| + | |
| − | * MOD website<br />
| + | |
| − | *; [http://turnkey.sf.net gmod-web/Turnkey]
| + | |
| − | *: a generic web front end for browsing database contents.<br />
| + | |
| − | * Genome Editing and Visualization<br />
| + | |
| − | *; [[Apollo]]
| + | |
| − | *: a Java application for viewing and editing genome annotations [[[http://www.fruitfly.org/annot/apollo/install.html Download]]]<br />
| + | |
| − | *; [[GBrowse]]
| + | |
| − | *: a CGI application for displaying genome annotations [[[http://sourceforge.net/project/showfiles.php?group_id=27707&package_id=34513 Download]]]<br />
| + | |
| − | * Comparative Genomics<br />
| + | |
| − | *; [[Synbrowse]]
| + | |
| − | *: a GBrowse based synteny viewer [[[http://www.synbrowse.org/download.html Download]]]<br />
| + | |
| − | *; [[CMap]]
| + | |
| − | *: a CGI application for displaying comparative maps [[[http://sourceforge.net/project/showfiles.php?group_id=27707&package_id=55129 Download]]]<br />
| + | |
| − | * Literature curation<br />
| + | |
| − | *; [[PubSearch]]
| + | |
| − | *: a Java servlet web application for annotating genes from literature [[[http://sourceforge.net/project/showfiles.php?group_id=27707&package_id=100560 Download]]]<br />
| + | |
| − | *; [[PubFetch]]
| + | |
| − | *: a tool to facilitate literature collection for curators' use [[[http://sourceforge.net/project/showfiles.php?group_id=27707&package_id=126656 Download]]]<br />
| + | |
| − | *; [[Textpresso]]
| + | |
| − | *: a text mining system for scientific literature [[[http://textpresso.org/textpresso/downloads.html Download]]]<br />
| + | |
| − | * Database querying tools<br />
| + | |
| − | *; [http://www.biomart.org/ BioMart]
| + | |
| − | *: a query-oriented data management system [[[http://www.biomart.org/install.html Download]]]
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