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nightly build 11-14-2024, using gen3.biodatacatalyst.nhlbi.nih.gov
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,54 +1,155 @@ | ||
| mappings: | ||
| - name: bloodpac | ||
| doc_type: case | ||
| - name: gen3.biodatacatalyst.nhlbi.nih.gov_subject | ||
| doc_type: subject | ||
| type: aggregator | ||
| root: case | ||
| root: subject | ||
| props: | ||
| - name: submitter_id | ||
| - name: project_id | ||
| - name: consent_codes | ||
| - name: geographic_site | ||
| flatten_props: | ||
| - path: demographics | ||
| props: | ||
| - name: gender | ||
| - name: race | ||
| - name: ethnicity | ||
| - name: age_at_index | ||
| - name: hispanic_subgroup | ||
| - name: subcohort | ||
| - name: weight_baseline | ||
| - name: bmi_baseline | ||
| - name: height_baseline | ||
| - path: medical_histories | ||
| props: | ||
| - name: diabetes | ||
| - name: hypertension | ||
| - name: cerebrovascular_disease | ||
| - name: chronic_respiratory_disease | ||
| - name: coronary_artery_disease | ||
| - name: asthma | ||
| - name: cabg_presence | ||
| - name: copd | ||
| - name: emphysema | ||
| - name: heart_failure | ||
| - name: myocardial_infarction | ||
| - name: stroke | ||
| - name: cac_score | ||
| - name: cac_volume | ||
| - name: carotid_plaque | ||
| - name: carotid_stenosis | ||
| - name: cimt_1 | ||
| - name: cimt_2 | ||
| - name: vte_case_status | ||
| - name: vte_followup_start_age | ||
| - name: vte_prior_history | ||
|
|
||
| - path: medication_records | ||
| props: | ||
| - name: hypertension_meds | ||
| - name: antihypertensive_meds | ||
| - name: fasting_lipids | ||
| - name: lipid_lowering_medication | ||
| - path: lab_results | ||
| props: | ||
| - name: lymphocyte_ncnc_bld | ||
| - name: mch_entmass_rbc | ||
| - name: mcv_entvol_rbc | ||
| - name: mchc_mcnc_rbc | ||
| - name: monocyte_ncnc_bld | ||
| - name: neutrophil_ncnc_bld | ||
| - name: pmv_entvol_bld | ||
| - name: rbc_ncnc_bld | ||
| - name: rdw_ratio_rbc | ||
| - name: hemoglobin_mcnc_bld | ||
| - name: platelet_ncnc_bld | ||
| - name: hematocrit_vfr_bld | ||
| - name: wbc_ncnc_bld | ||
| - name: basophil_ncnc_bld | ||
| - name: eosinophil_ncnc_bld | ||
| - name: unit_triglycerides | ||
| - name: hdl | ||
| - name: ldl | ||
| - name: triglycerides | ||
| - name: total_cholesterol | ||
| aggregated_props: | ||
| - name: _biospecimens_count | ||
| path: biospecimens | ||
| fn: count | ||
| - name: annotated_sex | ||
| path: demographics | ||
| src: annotated_sex | ||
| fn: set | ||
| - name: race | ||
| path: demographics | ||
| src: race | ||
| fn: set | ||
| - name: ethnicity | ||
| path: demographics | ||
| src: ethnicity | ||
| fn: set | ||
| - name: _samples_count | ||
| path: biospecimens.samples | ||
| path: samples | ||
| fn: count | ||
| - name: _aliquots_count | ||
| path: biospecimens.samples.aliquots | ||
| fn: count | ||
| - name: _analytes_count | ||
| path: biospecimens.samples.aliquots.analytes | ||
| fn: count | ||
| - name: _cell_images_count | ||
| path: biospecimens.samples.aliquots.analytes.cell_images | ||
| fn: count | ||
| - name: _mass_cytometry_assays_count | ||
| path: biospecimens.samples.aliquots.analytes.mass_cytometry_assays | ||
| fn: count | ||
| - name: _mass_cytometry_images_count | ||
| path: biospecimens.samples.aliquots.analytes.mass_cytometry_assays.mass_cytometry_images | ||
| path: samples.aliquots | ||
| fn: count | ||
| - name: _read_groups_count | ||
| path: biospecimens.samples.aliquots.analytes.read_groups | ||
| path: samples.aliquots.read_groups | ||
| fn: count | ||
| - name: _slide_images_count | ||
| path: biospecimens.samples.aliquots.slide_images | ||
| - name: _submitted_unaligned_reads_files_count | ||
| path: samples.aliquots.read_groups.submitted_unaligned_reads_files | ||
| fn: count | ||
| - name: _submitted_aligned_reads_files_count | ||
| path: biospecimens.samples.aliquots.analytes.read_groups.submitted_aligned_reads_files | ||
| fn: count | ||
| - name: _submitted_methylations_count | ||
| path: biospecimens.samples.aliquots.analytes.submitted_methylation_files | ||
| path: samples.aliquots.read_groups.submitted_aligned_reads_files | ||
| fn: count | ||
| - name: _submitted_somatic_mutations_count | ||
| path: biospecimens.samples.aliquots.analytes.read_groups.submitted_somatic_mutations | ||
| fn: count | ||
| - name: _submitted_unaligned_reads_files_count | ||
| path: biospecimens.samples.aliquots.analytes.read_groups.submitted_unaligned_reads_files | ||
| - name: _simple_germline_variations_count | ||
| path: samples.aliquots.read_groups.simple_germline_variations | ||
| fn: count | ||
| - name: current_smoker_baseline | ||
| path: exposures | ||
| src: current_smoker_baseline | ||
| fn: set | ||
| - name: ever_smoker_baseline | ||
| path: exposures | ||
| src: ever_smoker_baseline | ||
| fn: set | ||
| parent_props: | ||
| - path: studies[studies_submitter_id:submitter_id].projects[code] | ||
| - path: studies[studies_submitter_id:submitter_id].projects[code].programs[programs_name:name] | ||
| joining_props: | ||
| - index: file | ||
| join_on: _subject_id | ||
| props: | ||
| - name: data_format | ||
| src: data_format | ||
| fn: set | ||
| - name: data_type | ||
| src: data_type | ||
| fn: set | ||
| - name: file_count | ||
| src: _file_id | ||
| fn: count | ||
| - name: gen3.biodatacatalyst.nhlbi.nih.gov_file | ||
| doc_type: file | ||
| type: collector | ||
| root: None | ||
| category: data_file | ||
| props: | ||
| - name: object_id | ||
| - name: md5sum | ||
| - name: file_name | ||
| - name: file_size | ||
| - name: data_category | ||
| - name: data_format | ||
| - name: data_type | ||
| - name: state | ||
| - name: callset | ||
| - name: bucket_path | ||
| - name: source_node | ||
| injecting_props: | ||
| subject: | ||
| props: | ||
| - name: _subject_id | ||
| src: id | ||
| fn: set | ||
| - name: project_id | ||
| program: | ||
| props: | ||
| - name: programs_name | ||
| src: name | ||
| fn: set |
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