ejp-rd-vp/DistributedAnalysis

Issues

• Define metadata schema for Transcriptome catalogues

  #13 opened 10 months ago by mroos
  7

• Define specific queries on specific CDEs modelled by Care-SM

  #28 opened 9 months ago by mroos
  13

• Create FDPs for Hamlet data as 'LUMC' and Phenopacket store as 'Sweden' eg on test bed

  #75 opened 3 months ago by mroos
  0

• Convert Rosa's query into Shallot calls

  #74 opened 3 months ago by mroos
  0

• See how to integrate predictions of marketed drugs with other use cases.

  #65 opened 6 months ago by dwijnbergen
  1

• Definitions federated analysis and distributed analysis

  #64 opened 6 months ago by dwijnbergen
  1

• Play with Mark's Virtual Platform

  #73 opened 3 months ago by mroos
  1

• Define metadata schema for variant and clinical information sources

  #14 opened 10 months ago by mroos
  3

• Share configuration of test bed so people can add or link components to it.

  #30 opened 9 months ago by mroos
  7

• Synthetic genome data and 1+ Million Genomes Framework services (NBIS - ELIXIR Sweden)

  #29 opened 9 months ago by mroos
  14

• Create LUMC synthetic genome + clinical data FDP for testbed

  #31 opened 4 months ago by mroos
  3

• GDI use case

  #40 opened 5 months ago by dwijnbergen
  1

• Merge tasks

  #63 opened 5 months ago by dwijnbergen
  0

• Describe in slides to explain connection in metadata between station data service and train metadata

  #72 opened 6 months ago by mroos
  0

• Create mock FDPs in Test bed with Clinical Genetics catalogue entries for mock LUMC, RUMC, HCP-X

  #71 opened 6 months ago by mroos
  2

• Create mock RDF of clinical information (diagnosis, diagnostic test, symptom=phenotype) conform to CARE SM CDEs in Test bed for the genome interoperability use case for mock LUMC, RUMC, HCP-X

  #70 opened 6 months ago by mroos
  0

• Create mock RDF of pathogenic variants conform to CARE SM version of Phenopacket Genotype in Test bed for the genome interoperability use case for mock LUMC, RUMC, HCP-X

  #69 opened 6 months ago by mroos
  0

• Create mock ontologised data (RDF) in Test bed for the genome interoperability use case

  #68 opened 6 months ago by mroos
  0

• Deprecated: Genome interoperability use case/demo use case (see #57)

  #39 opened 6 months ago by dwijnbergen
  5

• Define how DCAT interacts with Semantic Phenopackets Model

  #37 opened 6 months ago by mroos
  1

• Define common methods used in use cases

  #66 opened 6 months ago by dwijnbergen
  0

• Sort out github distributedanalysis fs federated

  #33 opened 9 months ago by mroos
  0

• FDP oversight and admin rights contact point

  #43 opened 10 months ago by andrawaag
  0

• Discuss the metadata required for a Data Service.

  #42 opened 9 months ago by markwilkinson
  0

• Create L3 slide decks

  #41 opened 8 months ago by mroos
  1

• Define how DCAT interacts with Semantic Phenopackets Model

  #38 opened 6 months ago by mroos
  0

• Step 14 - Use the FAIR Train Handler to send the Trains to the stations

  #27 opened 10 months ago by mroos
  0

• Step 12 - Wrap the queries as FAIR Data Trains

  #25 opened 10 months ago by mroos
  0

• Step 13 - Deploy the FAIR Train Handler

  #26 opened 10 months ago by mroos
  0

• Step 11 - Test the queries using the interface from step 05

  #24 opened 10 months ago by mroos
  0

• Step 10 Define the distributed data queries

  #23 opened 10 months ago by mroos
  0

• Step 09 - Deploy synthetic data sets in the FDTs

  #22 opened 10 months ago by mroos
  0

• Step 08 - Deploy FAIR Data Stations

  #21 opened 10 months ago by mroos
  0

• Step 07 - Create mock or synthetic data sets (or real if readily accessible)

  #20 opened 10 months ago by mroos
  0

• Step 06 - Define data model(s)

  #19 opened 10 months ago by mroos
  0

• Step 05 - Create user interface for technical users to trigger the distributed queries

  #18 opened 10 months ago by mroos
  0

• Step 04 - Define distributed metadata queries that satisfy the use cases

  #17 opened 10 months ago by mroos
  0

• Step 03 - Configure FDPs with the defined schemas and populate them

  #16 opened 10 months ago by mroos
  2

• Create writable FDPs for BioHackathon

  #36 opened 8 months ago by mroos
  1

• Make inventory of necessary services for test bed and VP tutorial

  #32 opened 9 months ago by mroos
  1

• Add Care-SM synthetic data source to test bed

  #35 opened 9 months ago by mroos
  1

• Scenario of the tutorial (steps etc.)

  #34 opened 9 months ago by mroos
  1

• Define metadata schema for public resources linkable to genome + clinical information

  #15 opened 10 months ago by mroos
  2

• OA and P2 leadership is directed to examine DUC and ODRL - task 100% complete

  #12 opened 10 months ago by markwilkinson
  0

• Onboarding and Federated Consent teams update FDP metadata with link to DUC Profile

  #11 opened 10 months ago by markwilkinson
  0

• Onboarding and Federated Consent teams update FDP metadata records with link to ODRL

  #10 opened 10 months ago by markwilkinson
  0

• Equivalent ODRLs are created, and published (location undetermined)

  #9 opened 10 months ago by markwilkinson
  0

• Selected CCEs are delivered to Wilkinson team

  #8 opened 10 months ago by markwilkinson
  0

• DUC Profiles are reviewed by Federated Consent team

  #7 opened 10 months ago by markwilkinson
  0

• URLs of published DUC Profiles for a selection of repositories are provided to Onboarding and Federated Consent teams

  #6 opened 10 months ago by markwilkinson
  0