MissionEstablish a dry lab that empowersboth researcher and clinicians withstate-of-the-art bioinformaticssolutions in order to enabletranslational medicine todayADAM = A DryLab AMsterdam
Built a portal by combiningpre-existing building blocksCommunication platformTicketing/Service platformWorkflow platform
Creating syngery bycombining building blocksCommunication platform based onwordpress Manage contacts, calendars, events Share educational resources Proactive use of social media by integration RSS, Twitter
Creating syngery bycombining building blocksTicketing platform based on Mantis Establish a wiki type internal knowledge base Make inventory of existing competences Leverage/manage expectations, response times Match expertises, prioritize most important recurring problem, distinguish urgent from important problems ...
Creating syngery by combining building blocksWorkflow platform based on Galaxy Reuse, leverage other systems ... ensure CVS - concurrent versioning system (for the bioinformaticians) ... ensure education towards researchers USE CASES (running project, miRNA, CRC integration work, H2G2, cervix ... other TRAIT examples) Aim for re-use-ability of pipelines
For bioinformaticians - developers:Version Control SystemVersion Control SystemRevision control is any practice that tracks and providescontrol over changes to source code (inclusing scripting,statistical pipelines).It has become increasingly common for a single snippet ofcode to be edited by a team, the members of which may begeographically dispersed and may pursue different interests.Sophisticated revision control that tracks and accounts forownership of changes to documents and code may be extremelyhelpful or even necessary in such situations.Essential for consolidation !
CloudBioLinux (http://cloudbiolinux.org/ quickly build-your-own suite/ready to roll graphical and command line accesCloudMan (http://usecloudman.org/) create a scalable and shareable processing platform orchestrates the steps required to provision and manage compute clusters on a cloud infrastructure, all through a web browser. In minutes, you can use a vanilla SGE cluster or a complete bioinformatics analysis environment.Galaxy (http://usegalaxy.org) do exploratory analysisBioCloudCentral (http://biocloudcentral.org) get started easily
Next StepsPlanning phase Circulate internal within pathology PIL Get feedback, remarks, setup implementation meeting (hardware, location) Define KPI (key performance indicators)Implemention phase Deploy ADAM: Wordpress, mantis, galaxy USE CASES Evaluate using KPI
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