gtex.yaml

study_id: GTEx
study_accession:  phs000424
study_title: Genotype-Tissue Expression (GTEx)
study_desc: This study contains open access data from the The Genotype-Tissue Expression (GTEx) project. More details can be found at [www.gtexportal.org](http://www.gtexportal.org).
study_sponsor:
  id: nhgri
  name: National Human Genome Research Institute (NHGRI)
url: https://gtexportal.org
identifier_prefix: https://anvilproject.org/gtex/fhir
output_filename: gtex-v8
id_colname: SUBJID
whistle_src: _gtex.wstl
code_harmonization_dir: harmony
require_official: True
curies:
  http://purl.obolibrary.org/obo/uberon.owl: UBERON
projector_lib: projector
env:
  dev: dev
  qa: dev-fhir-cat
  prod: fhir-cat
dataset:
  subject_phenotypes: 
    filename: data/GTEx_Analysis_v8_Annotations_SubjectPhenotypesDS.txt
    delimiter: "\t"
    data_dictionary: 
      filename:  data/subject_phenotype-dd.csv
      colnames:
        varname: varname
        desc: vardesc
        type: type
        values: values
    code_harmonization: harmony/gtex-harmony.csv
  sample_attributes: 
    filename: data/GTEx_Analysis_v8_Annotations_SampleAttributesDS.txt
    delimiter: "\t"
    data_dictionary: 
      filename:  data/GTEx_Analysis_v8_Annotations_SampleAttributesDD.csv
      colnames:
        varname: varname
        desc: vardesc
        type: type
        values: values
    code_harmonization: harmony/gtex-harmony.csv
  file_manifest: 
    filename: data/file_manifest.csv
    embed:
      dataset: sample_attributes
      colname: sampid
    data_dictionary: 
      filename:  data/file_manifest-dd.csv
      colnames:
        varname: varname
        desc: vardesc
        type: type
        values: values
    code_harmonization: harmony/gtex-harmony.csv
active_tables:
  ALL: true