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INCEPTdk
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omop_etl
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Calcium mappings
#156
epiben
opened
1 week ago
0
fix wrong join in automatic ICD mapping
#155
daplaci
closed
2 months ago
0
Add multi-transform integration tests
#154
epiben
opened
2 months ago
0
Validate era_lookback_intervals
#153
epiben
closed
2 months ago
2
Define INCLUDE_UNMAPPED_CODES in one place and refer to that
#152
epiben
closed
2 months ago
1
Add transform for diagnoses and procedures from CIS
#151
epiben
opened
2 months ago
0
Fix SQLAlchemy and Pandas warnings
#150
epiben
opened
2 months ago
0
Use sweep-line algorithm to create eras, with ORM
#149
epiben
closed
2 months ago
1
use unite intervals for eras
#148
daplaci
closed
2 months ago
0
LOG should be also redirected to file with time of execution
#147
daplaci
opened
2 months ago
0
Reconcile data file formats
#146
epiben
opened
2 months ago
0
add administrations that are not drugs
#145
daplaci
closed
2 months ago
1
BUG - Non null constraint in drug era violated
#144
daplaci
closed
2 months ago
2
Add validation of source variables from ConceptLookupStem
#143
daplaci
closed
2 months ago
0
test docker container using ghcr
#142
daplaci
closed
2 months ago
0
add warning for codes in CLS that are not in the source
#141
daplaci
closed
2 months ago
0
Add drugs without prescription id
#140
daplaci
closed
2 months ago
0
Optimize mem with commit each transform
#139
daplaci
closed
2 months ago
1
mem issues
#138
daplaci
opened
3 months ago
1
Add qualifier_concept_id to ORM table
#137
epiben
closed
3 months ago
1
change separator between source_variable and description
#136
daplaci
opened
3 months ago
0
Automatic mapping icd10
#135
daplaci
closed
3 months ago
2
rename quantity_or_value_as_number in observation and measurement
#134
daplaci
closed
3 months ago
0
Use OMOP-supported source_concept_id's in DRUG_EXPOSURE
#133
epiben
closed
3 months ago
0
Live issue on things to address in the documentation
#132
epiben
opened
3 months ago
0
replace drug_exposure_concept_id with a standard code
#131
daplaci
closed
3 months ago
0
Harmonise casing of ORM tables (incl. CTEs)
#130
epiben
opened
3 months ago
0
fix long time build by using pandas version with available binary for python 3.11
#129
daplaci
closed
3 months ago
1
Simplify code and general refactoring
#128
epiben
opened
3 months ago
0
WIP: fix issue from dqd 1
#127
daplaci
closed
3 months ago
1
fixes from dqd round 1
#126
daplaci
closed
3 months ago
0
Simplify logic for numerical and free-text value types
#125
epiben
opened
3 months ago
1
do automatic mapping / transform for ICD10
#124
daplaci
closed
3 months ago
0
Adding docs website with gh-pages
#123
epiben
closed
2 months ago
1
rename value_as_number to quantity_or_value_as_number
#122
epiben
closed
3 months ago
2
add cdm source transform
#121
daplaci
closed
3 months ago
0
add log to custom summary table
#120
daplaci
closed
3 months ago
1
cdm_source should be filled at the end of etl
#119
daplaci
closed
3 months ago
0
print summary should be a sqlalchemy model where every etl writes to
#118
daplaci
closed
3 months ago
0
Add batching cis to stem
#117
daplaci
closed
3 months ago
0
mem issues
#116
daplaci
closed
3 months ago
3
Add missing value source value
#115
daplaci
closed
3 months ago
9
Some sites have a broken description. which sort of affects the whole mapping
#114
daplaci
opened
4 months ago
3
Laboratory from registry should use probably this type concept id 32856
#113
daplaci
closed
3 months ago
1
Use time zones for timestamps
#112
epiben
closed
2 months ago
2
Merge ETL - simplify using hashed ids
#111
daplaci
closed
4 months ago
0
Exploit hashed visit_occurrence_id in merge etl
#110
daplaci
closed
4 months ago
0
Fix one second difference between source and cdm for continuos drugs
#109
daplaci
closed
4 months ago
1
fix bug with missing conversion in drug_to_stem
#108
daplaci
closed
4 months ago
1
add hash for person_id and visit_occurrence_id
#107
daplaci
closed
4 months ago
4
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