caliber
InputPotential cases of Bacterial-Diseases
⇣
Step

load
'read-potential-cases-disc'
Read potential cases from disc
Select implementation:
Switch to: read-potential-cases-i2b2, read-potential-cases-omop, read-potential-cases-fhir.
⇣
OutputInitial potential cases, read from disc. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-cholera---secondary'
Identify Bacterial Diseases excl TB cholera - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-fever---secondary'
Identify Bacterial Diseases excl TB fever - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'other-bacterial-diseases-excl-tb---secondary'
Identify Other Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-shigellosis---secondary'
Identify Bacterial Diseases excl TB shigellosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-classified---secondary'
Identify Bacterial Diseases excl TB classified - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-plague---secondary'
Identify Bacterial Diseases excl TB plague - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-tularaemia---secondary'
Identify Bacterial Diseases excl TB tularaemia - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-anthrax---secondary'
Identify Bacterial Diseases excl TB anthrax - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-brucellosis---secondary'
Identify Bacterial Diseases excl TB brucellosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb---secondary'
Identify Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'erysipeloid-bacterial-diseases-excl-tb---secondary'
Identify Erysipeloid Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-leptospirosis---secondary'
Identify Bacterial Diseases excl TB leptospirosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-leprosy---secondary'
Identify Bacterial Diseases excl TB leprosy - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-listeriosis---secondary'
Identify Bacterial Diseases excl TB listeriosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-diphtheria---secondary'
Identify Bacterial Diseases excl TB diphtheria - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'meningococcal-bacterial-diseases-excl-tb---secondary'
Identify Meningococcal Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-streptococcu---secondary'
Identify Bacterial Diseases excl TB streptococcu - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'staphylococcal-bacterial-diseases-excl-tb---secondary'
Identify Staphylococcal Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-influenzae---secondary'
Identify Bacterial Diseases excl TB influenzae - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-sepsis---secondary'
Identify Bacterial Diseases excl TB sepsis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-actinomycosis---secondary'
Identify Bacterial Diseases excl TB actinomycosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-nocardiosis---secondary'
Identify Bacterial Diseases excl TB nocardiosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-bartonellosis---secondary'
Identify Bacterial Diseases excl TB bartonellosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-erysipelas---secondary'
Identify Bacterial Diseases excl TB erysipelas - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-unspecified---secondary'
Identify Bacterial Diseases excl TB unspecified - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'congenital-bacterial-diseases-excl-tb---secondary'
Identify Congenital Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-syphilis---secondary'
Identify Bacterial Diseases excl TB syphilis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'gonococcal-bacterial-diseases-excl-tb---secondary'
Identify Gonococcal Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-chlamydia---secondary'
Identify Bacterial Diseases excl TB chlamydia - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'chancroid-bacterial-diseases-excl-tb---secondary'
Identify Chancroid Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-yaws---secondary'
Identify Bacterial Diseases excl TB yaws - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-trachoma---secondary'
Identify Bacterial Diseases excl TB trachoma - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-rickettsioses---secondary'
Identify Bacterial Diseases excl TB rickettsioses - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-sequelae---secondary'
Identify Bacterial Diseases excl TB sequelae - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-agent---secondary'
Identify Bacterial Diseases excl TB agent - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-chapter---secondary'
Identify Bacterial Diseases excl TB chapter - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-meningitis---secondary'
Identify Bacterial Diseases excl TB meningitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-otitis---secondary'
Identify Bacterial Diseases excl TB otitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-involvement---secondary'
Identify Bacterial Diseases excl TB involvement - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'rheumatic-bacterial-diseases-excl-tb---secondary'
Identify Rheumatic Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-valve---secondary'
Identify Bacterial Diseases excl TB valve - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-heart---secondary'
Identify Bacterial Diseases excl TB heart - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-pneumoniae---secondary'
Identify Bacterial Diseases excl TB pneumoniae - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-bronchitis---secondary'
Identify Bacterial Diseases excl TB bronchitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-carbuncle---secondary'
Identify Bacterial Diseases excl TB carbuncle - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-abscess---secondary'
Identify Bacterial Diseases excl TB abscess - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-pyothorax---secondary'
Identify Bacterial Diseases excl TB pyothorax - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-peritonitis---secondary'
Identify Bacterial Diseases excl TB peritonitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-impetigo---secondary'
Identify Bacterial Diseases excl TB impetigo - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-cellulitis---secondary'
Identify Bacterial Diseases excl TB cellulitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-erythrasma---secondary'
Identify Bacterial Diseases excl TB erythrasma - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-polyarthritis---secondary'
Identify Bacterial Diseases excl TB polyarthritis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'infective-bacterial-diseases-excl-tb---secondary'
Identify Infective Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-spondylitis---secondary'
Identify Bacterial Diseases excl TB spondylitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-tenosynovitis---secondary'
Identify Bacterial Diseases excl TB tenosynovitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-bursitis---secondary'
Identify Bacterial Diseases excl TB bursitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-osteomyelitis---secondary'
Identify Bacterial Diseases excl TB osteomyelitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'infectious-bacterial-diseases-excl-tb---secondary'
Identify Infectious Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-pyonephrosis---secondary'
Identify Bacterial Diseases excl TB pyonephrosis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'acute-bacterial-diseases-excl-tb---secondary'
Identify Acute Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-prostatocystitis---secondary'
Identify Bacterial Diseases excl TB prostatocystitis - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'bacterial-diseases-excl-tb-cervix---secondary'
Identify Bacterial Diseases excl TB cervix - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

logic
'pelvic-bacterial-diseases-excl-tb---secondary'
Identify Pelvic Bacterial Diseases excl TB - secondary
Select implementation:
⇣
OutputPatients with clinical codes indicating Bacterial-Diseases related events in electronic health record. (csv)
InputPotential cases of Bacterial-Diseases
⇣
Step

output
'output-cases'
Output cases
Select implementation:
⇣
OutputOutput containing patients flagged as having this type of Bacterial-Diseases (csv)