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Examine logic of mapping in
https://www.nature.com/articles/s41746-019-0110-4
and
https://github.com/monarch-initiative/loinc2hpo
decide on software architecture for the Python version.
Probab…
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Let's work on updating https://github.com/monarch-initiative/loinc2hpo and resolving some of the codacy issues.
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Use case: instantiate an instance of the translator knowledge graph (behind firewall, etc) and merge in observational data, so we have patient encounters linking up to HPO, MONDO, OBA nodes etc.
Re…
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Perhaps harmonization of the Lab Values ( Detec, Pos, Neg, etc) is an opportunity for the NLP team to exercise their methods. We now have the raw Lab Values from at least 9 sites to test and validate …
mim18 updated
2 years ago
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This will require local installation but loinc2hpo can be put on maven central after it stabilizes
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I do not think the following is valid FHIR because the LOINC test is quantitative and but the interpretation is "Abnormal" (which could be high or low).
https://github.com/monarch-initiative/loinc2…
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Please see README and [loinc2hpo-annotations.tsv](https://github.com/TheJacksonLaboratory/loinc2hpoAnnotation/blob/master/loinc2hpo-annotations.tsv). I think this format is a little easier to understa…
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Unsure why we are tyring to read the file in when the user presses save -- something is miswired.
```
Loinc2HpoRuntimeException: Malformed line with 8 fields: 600-7 s NOMINAL NEG HP:0031864 HPO:nva…
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Some of the code in loinc2hpo is designed to support biocuration but is not needed for the actual library. I am moving the relevant code to the biocuration app and removing it here for clarity's sake.