0
Molecular Profiling
Personal Genomics       Text
MissionEstablish a dry lab that empowersboth researcher and clinicians withstate-of-the-art bioinformaticssolutions in ord...
Built a portal by combiningpre-existing building blocksCommunication platformTicketing/Service platformWorkflow platform
Creating syngery bycombining building blocksCommunication platform based onwordpress Manage contacts, calendars, events Sh...
Creating syngery bycombining building blocksTicketing platform based on Mantis  Establish a wiki type internal knowledge b...
Creating syngery by combining building blocksWorkflow platform based on Galaxy  Reuse, leverage other systems ... ensure C...
For bioinformaticians - developers:Version Control SystemVersion Control SystemRevision control is any practice that track...
implementation
Galaxy                         CloudMan          implementationCloudBioLinux          BioCloudCentral
CloudBioLinux (http://cloudbiolinux.org/ quickly build-your-own suite/ready to roll graphical and command line accesCloudM...
Next StepsPlanning phase  Circulate internal within pathology PIL  Get feedback, remarks, setup implementation  meeting (h...
December 2012 drylab
Upcoming SlideShare
Loading in...5
×

December 2012 drylab

1,600

Published on

Published in: Education
0 Comments
0 Likes
Statistics
Notes
  • Be the first to comment

  • Be the first to like this

No Downloads
Views
Total Views
1,600
On Slideshare
0
From Embeds
0
Number of Embeds
5
Actions
Shares
0
Downloads
11
Comments
0
Likes
0
Embeds 0
No embeds

No notes for slide

Transcript of "December 2012 drylab"

  1. 1. Molecular Profiling
  2. 2. Personal Genomics Text
  3. 3. MissionEstablish a dry lab that empowersboth researcher and clinicians withstate-of-the-art bioinformaticssolutions in order to enabletranslational medicine todayADAM = A DryLab AMsterdam
  4. 4. Built a portal by combiningpre-existing building blocksCommunication platformTicketing/Service platformWorkflow platform
  5. 5. Creating syngery bycombining building blocksCommunication platform based onwordpress Manage contacts, calendars, events Share educational resources Proactive use of social media by integration RSS, Twitter
  6. 6. 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 ...
  7. 7. 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
  8. 8. 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 !
  9. 9. implementation
  10. 10. Galaxy CloudMan implementationCloudBioLinux BioCloudCentral
  11. 11. 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
  12. 12. 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
  1. A particular slide catching your eye?

    Clipping is a handy way to collect important slides you want to go back to later.

×