-
I'm sorry in advance for (1) not following the issue template and (2) using incorrect language when referring to SSSOM concepts. I am new to this and still getting familiar with correct terminology et…
-
## 1. Read from VSAC
Need to clarify and decide on how to prioritize.
Stephanie: target to SSSOM format.
TermHub handle SSSOM? How soon?
## 2. Diff
Harold'9/28:
> Use the diffing tool to s…
-
## Overview
Stephanie has some updated maps that might be worth adding to: https://github.com/timsbiomed/sssom-on-fhir-content/
BDC / DMC biodata catalyst wants this.
- [ ] @stephanieshong Crea…
-
1. Get the `ofn` file
2. ROBOT convert to JSON
3. `sssom parse json-file`
4. Compare input SSSOM TSV to output SSSOM TSV. This should be done by a standard sssom diff command
-
Examples:
```
MONDO:0800437 Carey-Fineman-Ziter syndrome 1 skos:exactMatch mesh:C536102 semapv:UnspecifiedMatching
MONDO:0800445 Birt-Hogg-Dube syndrome 1 skos:exactMatch mesh:D058249 semapv:U…
-
**Use Case**
* I want to maintain mappings to various external systems but don't want to have the mapping metadata scattered across numerous files.
* I want to be able to specify mappings using t…
-
## Overview
I just noticed there is a weird extra `" "` in the middle of the label for `ICD10CM:I70-I79` in `mondo.sssom.tsv` that I recently built in `mondo-ingest`.
Subsection of `mondo.sssom.ts…
-
All sssom tables when run through split_sssom_by_source should be sorted entirely (like by all columns) and the columns should also be sorted in the sssom preferred order.
Right now, some rows in p…
-
We have been annotating xrefs using qualifiers like `skos:narrowMatch` and `skos:exactMatch` (#20620). Right now the degree to which these annotations are carried through the pipeline varies, and like…
-
When compared to OMOP2OBO, SSSOM lacks expressivity at first glance. Here is an example:
```
Example: Hip pain (OMOP_4170554)
Ontology Concepts:
Hip pain (HP_0030838)
Arthralgia of the hip (HP…