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  1. The Ontology for Biomedical Investigations

    Makefile 35 19

  2. Conversion from Synthea CSV to OMOP CDM

    R 40 31

  3. Hosts the TURBO Ontology and supporting files.

    Python 3

  4. Pipeline to generate an RDF knowledgegraph that links MonDO disease classes to ICD code terms.


  5. Here's a first step in modelling assays* with OBO* terms. It generates a template that can be executed by the ROBOT* application, leading to an RDF data model. Assays currently in scope have a spec…

    R 1

  6. Pipeline that maps strings describing medication orders to RxNorm terms, and generates an RDF knowledgegraph that links those strings to multiple ontologies including DrOn, ChEBI, ATC and NDF-RT.

    R 1 1

Contribution activity

June 2021

Created 4 repositories

Created a pull request in microbiomedata/nmdc-schema that received 14 comments

example of finding local part of IDs #69

Issue #69 Checking what common local parts are before asserting them in the nmdc-schema linkml

+1,091 −2 14 comments
Opened 4 other pull requests in 2 repositories
2 open 1 merged
1 merged
Reviewed 1 pull request in 1 repository
microbiomedata/nmdc-schema 1 pull request

Created an issue in INCATools/biosample-analysis that received 5 comments

make harmonized_table.db: no sars_cov_2_diag_pcr_ct_value_2 column

% time make target/harmonized_table.db % time make target/harmonized_table.db python ./util/ target/harmonized-t…


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