Changes between Version 5 and Version 6 of XgapStart


Ignore:
Timestamp:
2010-11-30T07:01:51+01:00 (12 years ago)
Author:
Morris Swertz
Comment:

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  • XgapStart

    v5 v6  
    22= Welcome to the eXtensible Genotype And Phenotype platform (XGAP) =
    33
    4 XGAP is an open and flexible data platform for all your xQTL, GWL, GWA and mutagenisis data and analysis. XGAP was originally born out of the Groningen Bionformatics Center, the EU-CASIMIR projet and EU-GEN2PHEN. Currently new XGAP extensions are being developed for
     4XGAP is an open and flexible data platform for all your xQTL, GWL, GWA and mutagenisis data and analysis based on [http://www.molgenis.org MOLGENIS]. XGAP was originally born out of the Groningen Bionformatics Center, the EU-CASIMIR projet and EU-GEN2PHEN. Active contributors include Joeri van der Velde ([http://www.panaceaproject.eu PANACEA]), Danny Arends ([http://gbic.biol.rug.nl RUG/GBIC]), Andre de Vries ([http://www.lifelines.nl LifeLines]), and Morris Swertz ([ttps://wiki.nbic.nl/index.php/Biobanking NBIC biobanking] and [http://wiki.gcc.rug.nl UMCG/GCC]).
     5
     6 Uses of XGAP are to:
     7
     8* '''Share experimental data with collaborators''' using the [XgapFormatTutorial easy to create and parse file format].                                                           
     9* '''Manage and query your data''' using the downloadable, free and customizeable web portal                                                         ([http://gbic.target.rug.nl:8080/xgap_1_2_demo/molgenis.do demo]).
     10* '''Connect your analysis tools''' using the scriptable bioinformatic interfaces to R, Taverna, and Java.
     11* '''Manage analysis''' - NEW! under development for xqtl/C. elegans and gwas imputation
     12
     13Currently new XGAP extensions are being developed for
     14
    515* '''xQTL workbench''': for xQTL studies in model organism C. elegans experiments in the [http://www.panaceaproject.eu/ EU-PANACEA] project
    616* '''GWAS workbench''': for GWAS studies in human populations [http://www.lifelines.org LifeLines] and [https://wiki.nbic.nl/index.php/Biobanking NBIC biobanking] projects.
    717
    8 Use XGAP to:
     18You can download XGAP for local use, checkout the source to customize XGAP using the open source [http://www.molgenis.org MOLGENIS] generator, or send an email to xgap-usersATgooglegroups.com to request a personal instance of XGAP on the xgap.org server. Please cite:
    919
    10  1. '''Share experimental data with collaborators''' using the [XgapFormatTutorial easy to create and parse file format].                                                           
    11  1. '''Manage and query your data''' using the downloadable, free and customizeable web portal                                                         ([http://gbic.target.rug.nl:8080/xgap_1_2_demo/molgenis.do demo]).
    12  1. '''Connect your analysis tools''' using the scriptable bioinformatic interfaces to R, Taverna, and Java.
    13 
    14 You can download XGAP for local use, checkout the source to customize XGAP using the open source [http://www.molgenis.org MOLGENIS] generator, or send an email to xgap-usersATgooglegroups.com to request a personal instance of XGAP on the xgap.org server.
    15 
    16 Please cite '''[http://genomebiology.com/2010/11/3/R27 Swertz et al (2010) XGAP: a uniform and extensible data model and software platform for genotype and phenotype experiments. Genome Biology 9;11(3):R27]''' on use.
     20 '''[http://genomebiology.com/2010/11/3/R27 Swertz et al (2010)  '''XGAP: a uniform and extensible data model and software platform for genotype and phenotype experiments'''. ''Genome Biology'' 9;11(3):R27]''' on use.
    1721
    1822= How to sharing data easily? =