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InterMine
Available on platform web  +
Has URL https://github.com/intermine/intermine.git  + , http://www.intermine.org  + , http://www.flymine.org  + , http://yeastmine.yeastgenome.org/  + , http://www.mousemine.org/  + , http://ratmine.mcw.edu/  + , http://zmine.zfin.org/  + , http://www.wormbase.org/tools/wormmine  +
Has description InterMine should always be checked out in source code form  + , InterMine makes it easy to integrate multiInterMine makes it easy to integrate multiple data sources into a single data warehouse. It has a core data model based on the Sequence Ontology and supports several biological data formats, just configure which organisms or data files are required. It is easy to extend the data model and integrate your own data, Java and Perl APIs and an XML format to help import custom data. Currently supported formats include Chado, GFF3, FASTA, GO and gene association files, UniProt XML, PSI XML (protein interactions), InParanoid orthologs, Ensembl, UniProt, and many others. A web application allows creation of custom queries, includes template queries (web forms to run 'canned' queries) and can upload and operate on lists of data. It is possible to configure/create widgets to analyse lists with graphs and enrichment statistics. An admin user can publish new template queries, change report pages and create public lists at any time without any programming. Many aspects of the web app can be configured and branded.the web app can be configured and branded.  +
Has development status active  +
Has input format Chado  + , [[GFF3]]  + , [[FASTA]]  + , GO ontology files  + , GO gene association files  + , UniProt XML  + , PSI XML (protein interactions)  + , InParanoid orthologs  + , Ensembl  + , Uniprot  + , and many others. Custom formats can be supported through the data-source framework.  +
Has licence [http://opensource.org/licenses/LGPL-3.0 LGPL]  +
Has logo InterMineLogo.png  +
Has output format Flat files (tsv  + , csv)  + , JSON  + , XML  + , GFF3  + , BED  + , FASTA  +
Has software maturity status mature  +
Has support status active  +
Has title InterMine source at GitHub  + , FlyMine  + , YeastMine  + , MouseMine  + , RatMine  + , ZMine  + , WormMine  +
Has topic InterMine +
Interaction type consumes data from  + , can provide data for  + , uses library for processing and loading data  +
Interactor InterMine  +
Interacts with JBrowse + , GBrowse + , Galaxy + , Pathway Tools + , Chado +
Is open source Yes  +
Link type download  + , source code  + , website  + , wild URL  +
Release date 1 January 2002  +
Tool functionality or classification Database tools  +
Written in language Java  + , Python  + , JavaScript  +
Has queryThis property is a special property in this wiki. InterMine + , InterMine + , InterMine + , InterMine + , InterMine + , InterMine + , InterMine + , InterMine + , InterMine + , InterMine +
Categories GMOD Component  + , SemanticLink  +
Modification dateThis property is a special property in this wiki. 6 November 2014 16:36:39  +
Has subobjectThis property is a special property in this wiki. InterMine#https://github.com/intermine/intermine.git + , InterMine#http://www.intermine.org + , InterMine#http://www.flymine.org + , InterMine#http://yeastmine.yeastgenome.org/ + , InterMine#http://www.mousemine.org/ + , InterMine#http://ratmine.mcw.edu/ + , InterMine#http://zmine.zfin.org/ + , InterMine#http://www.wormbase.org/tools/wormmine + , InterMine + , InterMine + , InterMine + , InterMine + , InterMine +
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GMOD Malaysia 2014/InterMine Tutorial + , InterMine + Has topic
InterMine + , InterMine + , InterMine + , InterMine + , InterMine + Subject
Intermine + redirect page
 

 

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