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## Objective
Integrating the clinical laboratory data with clinical phenotypes to enable effective data aggregation and search.
## Context
@mellybelly requested a strategy on how to integrate com…
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The selection options for
> Where will you submit your data as endpoints?
> 2. What kind of data will you handle:
> 4. Are there any standards that are relevant for you?
are currently (a) somew…
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This thread to serve as a request for a presentation at the next Data Stewards / DCPPC call on Alliance for Genome Resources (AGR) Supplement Aims. Specific Aim 3: "Develop the AGR Disease Navigator t…
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There are a number of existing slots/mixins/classes relating to - broadly speaking - phenotypic frequency. Recent discussions suggest room for improvement in their definition, structure and relationsh…
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Suggested/Brought up by @weiguUL
- [ ] why it matters https://www.ga4gh.org/news/phenopackets-standardizing-and-exchanging-patient-phenotypic-data/
- [ ] introduce the Phenopacket specification: …
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While the technical infrastructure for data aggregation and integration are sound, we continue to explore use cases that will test whether our knowledge ecosystem is complete enough to answer realisti…
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Currently `dng call` assumes that the somatic tree is in column 6. If a user submits an un-edited pedigree, column 6 might contain phenotype 0/1 data. Therefore, we should move the location of the s…
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- [x] Subset genoype data into AMR-detected, no AMR detected
- [x] Group samples with same AMR genes
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To run fendR we need an expression set with Entrez id's and appropriate drug data and other phenotypic information added here:
https://www.synapse.org/#!Synapse:syn11912239
This should include the…
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should we add the option in drawPedigree to plot with color only individuals for which we have phenotypic data (dat argument in drawPedigree) ?