Changes between Version 105 and Version 106 of WikiStart


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Timestamp:
2010-10-01T23:19:13+02:00 (15 years ago)
Author:
trac
Comment:

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  • WikiStart

    v105 v106  
    11[[BlogList(recent=5, max_size=250, format=float, heading=News)]]
    2 = Rapid generation of biosoftware you want to have =
    3 Just download a [MolgenisSystemList preconfigured MOLGENIS] or [MolgenisGuide generate your own] in three steps:
    4  1. Model what you want for your experiment in a simple XML file [http://www.molgenis.org/browser/molgenis_distro/3.3/molgenis_db.xml example db], [http://www.molgenis.org/browser/molgenis_distro/3.3/molgenis_ui.xml example ui]
    5  1. Run the MOLGENIS generator
    6  1. Use your web application [http://gbicserver1.biol.rug.nl:8080/demo example].
    7 Each MOLGENIS comes with rich data management interface and plug-in integration of analysis tools in R, Java and web services.
    82
    9 = Using MOLGENIS =
    10  * MolgenisSystemList -- Examples of MOLGENIS powered systems
    11  * MolgenisGuide -- How to generate your own molgenis
    12  * MolgenisDownload -- Get the software
    13  * MolgenisFaq -- Frequently asked questions about MOLGENIS and its use
    14  * MolgenisSystemList -- Catalog of existing MOLGENIS systems you can use as starting point
    15  * MolgenisSourceCode -- Browse and hack the source code
    16  * MolgenisJavaDoc -- Explore the APIs
    17  * MolgenisGoogleGroup -- Join our google group mail forum for all things around MOLGENIS
    18  * Watch it evolve: ChangeLog, [http://gbic.target.rug.nl/trac/molgenis/roadmap RoadMap]
     3= Welcome to the Genomics Coordination Centre =
     4The center for genomics databases and analysis tools, courses and workshops. See AboutGcc
    195
    20 For a complete list of available wiki pages, see the TitleIndex.
     6{{{#!td
    217
    22 = Getting involved =
    23 [http://gbic.target.rug.nl/trac/molgenis/register Register] and then login to:
     8= Databases =
     9* [http://www.molgenis.org MOLGENIS] - biosoftware toolkit
     10* [http://www.xgap.org XGAP] - GWAS and GWL
     11* [http://www.animaldb.org AnimalDB] - animal observation
     12* [http://gbic.target.rug.nl/trac/lsdb MutationDB] - mutations and patients
     13* [http://www.phenoflow.org Pheno] - phenotype observations
     14* [http://gbic.target.rug.nl/trac/mage MAGE] - microarray database
    2415
    25  * TracGuide -- Read on how to use this website, and how to add content
    26  * MolgenisProject -- Who is currently behind MOLGENIS
    27  * Apply for a MolgenisInternship
    28  * Add to the MolgenisGuide,
    29  * brainstorm new ideas on MolgenisEnhancements
    30  * or hack the MolgenisSourceCode.
    31  * SequencingWiki
     16}}}
     17{{{#!td
    3218
    33 = MOLGENIS Users =
    34 The MOLGENIS project is supported by the University Medical Center Groningen [http://www.rug.nl/umcg/faculteit/disciplinegroepen/medischegenetica/research/index UMCG], Groningen Bioinformatics Center [http://www.rug.nl/gbic GBIC], European Bioinformatics Institute [http://www.ebi.ac.uk EBI] and the Netherlands Bioinformatics Center [http://www.nbic.nl NBIC]. Are you curious who is using MOLGENIS, or would like to list your own name, visit the MolgenisUsers page.  Also don't hesitate to add to the MolgenisSystemList
     19= Analysis =
     20 * [RqtlPackage R/QTL] - R package QTL analysis
     21 * [http://www.ontocat.org OntoCAT] - ontology toolkit
     22 * [DesignGg Design GG] - experimental design of QTL experiments
     23 * [GenomicIslandsAnalysis Genomic Islands] - genomic islands
     24 * [wiki:PeakML] format - file format for mass spectrometry data
     25 * MzMatch - pipeline for mass spectrometry experiments in the area of metabolomics
     26}}}
     27|-------------------
     28{{{#!td
     29
     30= Intranet =
     31 * GccPlugins - overview of GCC plugins
     32 * GccMeetings - Notes on our weekly work meetings
     33 * GccProjects - Matrix of ongoing projects and their relationships
     34 * GccManuals - How to use the software and servers that we have
     35 * GccLinks - Hyperlinks to papers and websites of interest
     36 * GccTeam - Members of the group
     37 * GccCalendar - Meetings etc
     38 * GccGroup - Our mailing list and group discussion site
     39 * GccServers - How to connect to our servers
     40 * GccIfolder - How to connect to our iFolder
     41 * GccLogs - Logbooks of GCC people
     42
     43}}}
     44{{{#!td valign="top"
     45
     46= Collaborations =
     47* [http://gbic.biol.rug.nl GBIC] - Groningen Bioinformatics Center
     48* [http://www.geneticsgroningen.nl Genetics] - UMCG genetics department
     49* [http://www.rug.nl/cit/index] - Groningen Center for Information Technology
     50* [http://www.bbmriwiki.org BBMRI.NL] - Bioinformatics for Biobanking project
     51* [http://wiki.nbic.nl NBIC] - Netherlands BioInformatics Center
     52* [http://www.lifelines.nl LifeLines] - 30yr/165.000 people cohort study
     53* [http://www.ebi.ac.uk EBI] - European Bioinformatics Institute
     54* [http://www.gen2phen.org EU-GEN2PHEN] - Genotype to Phenotype project
     55* [http://www.casimir.ac.uk CASIMIR] - Coordination and Sustainability of International Mouse Informatics Resources
     56* [http://www.helmholtz-hzi.de/en/research/host_resistance_and_susceptibility/infection_genetics/externally_funded_projects/sysgenet/ SYSGENET] -  European systems genetics network
     57
     58}}}