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The `bids` command is currently very slow even for a few hundred subjects, primarily due to pybids (specifically the steps initializing the BIDS dataset). To make this more user-friendly we should add…
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The builder API provides /normalize and /synonymize. I guess I expected them to do roughly the same thing.
I called /normalize with:
```
{
"knowledge_graph": {
"edges": [],
"nodes": …
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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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**Scroll below to find updates to plan**
**Overview**
Green/Gamma Team is approaching Workflow 5 using [ICEES](https://github.com/NCATS-Tangerine/cq-notebooks/tree/master/Green_CQs/GreenTeam_Cli…
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I still don't see any references associated with any of the phenotypic statements or the class names from Huang etc. We say we provide provenance but we don't. We at least have to provide the full r…
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It would be great to have a third party widget for implementation of our annotation sufficiency meter. The visualization should help the user understand the current phenotypic profile distribution, pe…
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In recent work, we are getting on the order of 50-100 HPO terms per proband (from EHR text mining). This makes the current output of Exomiser unweildly. Even with smaller numbers of terms, the output …
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I want to propose to move out the GFF3 and FASTA loaders (and perhaps) others into a `tripal_genome` extension module. This way, core Tripal really is just core code. We could even fold in the Inter…