= Welcome to the BBMRI/GvNL Wiki = This is the wiki for the BBMRI-NL bioinformatics and GvNL analysis working groups. * See MeetingMinutes - minutes of our Skype meetings * See ProjectOverview - description of the bioinformatics regenboog * See DataAnalysisPlan - description of the GvNL analysis objectives * See WorkPlan - description of the current planning * See ReadingMaterials - for recommended powerpoints and papers * Projects and pipelines: * SchematicOverview - overview on how the pipelines work together * SnpCallingPipeline - description of the variation analysis pipeline (UMCG?) * CoverageAnalysisPipeline - description of the coverage analysis pipeline (AMC?) * ChipBasedQcPipeline - description of the chip data comparison QC pipeline (EMC?) * MendelianQcPipeline - description of the mendelian check pipeline * DeNovoVariationPipeline - finding de novo variations in the GvNL data (LUMC?) * TrioAwarePhasingPipeline - phasing the individuals using trio information * TrioAwareVariantDiscoveryPipeline - Trio-aware variant discovery and genotype calling pipeline * ImputationPipeline - description of the imputation pipeline (VU?,UMCG?) = Using this wiki = As all Wiki pages, this page is editable, this means that you can modify the contents of this page simply by using your web-browser. Simply click on the "Edit this page" link at the bottom of the page. WikiFormatting will give you a detailed description of available Wiki formatting commands. On top there is menu with additional features * '''Blog''' - Meetings, events etc can be blogged * '''Roadmap''' - Overview of the main objectives * '''Tickets''' - All our TODO's (per roadmap) we can collect under Tickets * '''Browse source''' - All our scripts we can browsed under Browse Source * '''Subversion''' - Programmers can commit their code using SVN at http://gbic.target.rug.nl/bbmri/svn