Datasets:

ADS599-Capstone
/

interim_data

dataset_info:
  - config_name: cohort_full
    features:
      - name: subject_id
        dtype: int64
      - name: ed_stay_id
        dtype: int64
      - name: hadm_id
        dtype: int64
      - name: ed_intime
        dtype: timestamp[us]
      - name: ed_outtime
        dtype: timestamp[us]
      - name: disposition
        dtype: large_string
      - name: race
        dtype: large_string
      - name: arrival_transport
        dtype: large_string
      - name: first_careunit
        dtype: large_string
      - name: first_icu_intime
        dtype: timestamp[us]
      - name: cohort_label
        dtype: large_string
      - name: gender
        dtype: large_string
      - name: anchor_age
        dtype: int64
      - name: anchor_year
        dtype: int64
      - name: admittime
        dtype: timestamp[us]
      - name: dischtime
        dtype: timestamp[us]
      - name: admission_type
        dtype: large_string
      - name: discharge_location
        dtype: large_string
      - name: insurance
        dtype: large_string
      - name: language
        dtype: large_string
      - name: marital_status
        dtype: large_string
      - name: ed_stay_id_2
        dtype: float64
      - name: stay_window_start
        dtype: timestamp[us]
      - name: stay_window_end
        dtype: timestamp[us]
      - name: ed_boarding_time_min
        dtype: float64
      - name: time_steps
        dtype: int64
    splits:
      - name: cohort_base
        num_bytes: 108446901
        num_examples: 397670
    download_size: 25727336
    dataset_size: 108446901
  - config_name: dispensed_meds
    features:
      - name: ed_stay_id
        dtype: int64
      - name: subject_id
        dtype: int64
      - name: hadm_id
        dtype: int64
      - name: charttime
        dtype: timestamp[us]
      - name: medication
        dtype: large_string
      - name: event_txt
        dtype: large_string
      - name: in_er
        dtype: bool
      - name: drug_class
        dtype: large_string
      - name: action_idx
        dtype: int64
      - name: minutes_into_stay
        dtype: float64
      - name: time_step
        dtype: int64
    splits:
      - name: er_and_ward
        num_bytes: 311238084
        num_examples: 2675531
    download_size: 33872234
    dataset_size: 311238084
  - config_name: ecg_results
    features:
      - name: ed_stay_id
        dtype: int64
      - name: subject_id
        dtype: int64
      - name: hadm_id
        dtype: int64
      - name: ecg_time
        dtype: timestamp[us]
      - name: ecg_acuity
        dtype: int64
    splits:
      - name: full_ecg
        num_bytes: 6226839
        num_examples: 155186
    download_size: 4053167
    dataset_size: 6226839
  - config_name: empty_patient_state
    features:
      - name: ed_stay_id
        dtype: int64
      - name: subject_id
        dtype: int64
      - name: hadm_id
        dtype: float64
      - name: time_steps
        dtype: int64
    splits:
      - name: empty_patient_state
        num_bytes: 1454310797
        num_examples: 45270375
    download_size: 10265748
    dataset_size: 1454310797
  - config_name: height
    features:
      - name: subject_id
        dtype: int64
      - name: chartdate
        dtype: date32
      - name: result_name
        dtype: large_string
      - name: result_value
        dtype: float64
    splits:
      - name: height_full
        num_bytes: 22419409
        num_examples: 656979
    download_size: 3891379
    dataset_size: 22419409
  - config_name: lab_results
    features:
      - name: ed_stay_id
        dtype: int64
      - name: category
        dtype: large_string
      - name: fluid
        dtype: large_string
      - name: order_time
        dtype: timestamp[us]
      - name: subject_id
        dtype: int64
      - name: hadm_id
        dtype: int64
      - name: result_time
        dtype: timestamp[us]
      - name: ordered_location
        dtype: large_string
      - name: abnormal
        dtype: bool
      - name: action
        dtype: large_string
    splits:
      - name: labs_full
        num_bytes: 269113124
        num_examples: 2542661
    download_size: 43257327
    dataset_size: 269113124
  - config_name: medrecon
    features:
      - name: ed_stay_id
        dtype: int64
      - name: subject_id
        dtype: int64
      - name: recon_ace_inhibitor
        dtype: uint8
      - name: recon_analgesic___nsaid
        dtype: uint8
      - name: recon_analgesic___opioid_nsaid
        dtype: uint8
      - name: recon_antiarrhythmic
        dtype: uint8
      - name: recon_antibiotic
        dtype: uint8
      - name: recon_anticoagulant
        dtype: uint8
      - name: recon_anticonvulsant
        dtype: uint8
      - name: recon_antiemetic
        dtype: uint8
      - name: recon_antiplatelet
        dtype: uint8
      - name: recon_antipsychotic
        dtype: uint8
      - name: recon_benzodiazepine___sedative_anxiolytic
        dtype: uint8
      - name: recon_beta_blocker
        dtype: uint8
      - name: recon_bronchodilator
        dtype: uint8
      - name: recon_calcium_channel_blocker
        dtype: uint8
      - name: recon_corticosteroid
        dtype: uint8
      - name: recon_diuretic
        dtype: uint8
      - name: recon_gi___acid_suppression
        dtype: uint8
      - name: recon_insulin_glucose
        dtype: uint8
      - name: recon_nitrate
        dtype: uint8
      - name: recon_n_total_meds
        dtype: int64
      - name: recon_n_drug_classes
        dtype: int64
    splits:
      - name: medrecon_full
        num_bytes: 15100539
        num_examples: 296089
    download_size: 4092329
    dataset_size: 15100539
  - config_name: microbiology
    features:
      - name: subject_id
        dtype: int64
      - name: ed_stay_id
        dtype: int64
      - name: hadm_id
        dtype: int64
      - name: charttime
        dtype: timestamp[us]
      - name: storetime
        dtype: timestamp[us]
      - name: action_space
        dtype: large_string
      - name: culture_result
        dtype: large_string
    splits:
      - name: microbiology_full
        num_bytes: 13591066
        num_examples: 185552
    download_size: 5278498
    dataset_size: 13591066
  - config_name: rad_results
    features:
      - name: ed_stay_id
        dtype: int64
      - name: subject_id
        dtype: int64
      - name: hadm_id
        dtype: int64
      - name: exam_time
        dtype: timestamp[us]
      - name: rad_acuity_level
        dtype: int64
    splits:
      - name: rad_full
        num_bytes: 10801289
        num_examples: 269191
    download_size: 6246623
    dataset_size: 10801289
  - config_name: triage_vitals
    features:
      - name: charttime
        dtype: timestamp[us]
      - name: ed_stay_id
        dtype: int64
      - name: subject_id
        dtype: int64
      - name: current_temperature
        dtype: float64
      - name: current_heartrate
        dtype: float64
      - name: current_resprate
        dtype: float64
      - name: current_o2sat
        dtype: float64
      - name: current_sbp
        dtype: float64
      - name: current_dbp
        dtype: float64
      - name: current_pain
        dtype: float64
      - name: acuity
        dtype: float64
      - name: chiefcomplaint
        dtype: large_string
      - name: source
        dtype: large_string
      - name: time_since_last_min
        dtype: float64
      - name: pain_missing
        dtype: int64
      - name: heartrate_missing
        dtype: int64
      - name: o2sat_missing
        dtype: int64
      - name: acuity_missing
        dtype: int64
      - name: chiefcomplaint_missing
        dtype: int64
      - name: resprate_missing
        dtype: int64
      - name: sbp_missing
        dtype: int64
      - name: dbp_missing
        dtype: int64
      - name: temperature_missing
        dtype: int64
      - name: temperature_delta
        dtype: float64
      - name: heartrate_delta
        dtype: float64
      - name: resprate_delta
        dtype: float64
      - name: o2sat_delta
        dtype: float64
      - name: sbp_delta
        dtype: float64
      - name: dbp_delta
        dtype: float64
      - name: pain_delta
        dtype: float64
      - name: temperature_rate_per_min
        dtype: float64
      - name: heartrate_rate_per_min
        dtype: float64
      - name: resprate_rate_per_min
        dtype: float64
      - name: o2sat_rate_per_min
        dtype: float64
      - name: sbp_rate_per_min
        dtype: float64
      - name: dbp_rate_per_min
        dtype: float64
      - name: current_mean_arterial_pressure
        dtype: float64
      - name: temperature_rolling1h
        dtype: float64
      - name: heartrate_rolling1h
        dtype: float64
      - name: resprate_rolling1h
        dtype: float64
      - name: o2sat_rolling1h
        dtype: float64
      - name: sbp_rolling1h
        dtype: float64
      - name: dbp_rolling1h
        dtype: float64
    splits:
      - name: triage_vitals_full
        num_bytes: 661714092
        num_examples: 1811202
    download_size: 88016187
    dataset_size: 661714092
  - config_name: weight
    features:
      - name: subject_id
        dtype: int64
      - name: chartdate
        dtype: date32
      - name: result_name
        dtype: large_string
      - name: result_value
        dtype: float64
    splits:
      - name: weight_full
        num_bytes: 56211758
        num_examples: 1647231
    download_size: 9166863
    dataset_size: 56211758
configs:
  - config_name: cohort_full
    data_files:
      - split: cohort_base
        path: cohort/cohort_base-*
  - config_name: dispensed_meds
    data_files:
      - split: er_and_ward
        path: dispensed_meds/er_and_ward-*
  - config_name: ecg_results
    data_files:
      - split: full_ecg
        path: ecg/full_ecg-*
  - config_name: empty_patient_state
    data_files:
      - split: empty_patient_state
        path: patient_state/empty_patient_state-*
  - config_name: height
    data_files:
      - split: height_full
        path: height_data/height_full-*
  - config_name: lab_results
    data_files:
      - split: labs_full
        path: labs/labs_full-*
  - config_name: medrecon
    data_files:
      - split: medrecon_full
        path: medrecon_data/medrecon_full-*
  - config_name: microbiology
    data_files:
      - split: microbiology_full
        path: microbiology_data/microbiology_full-*
  - config_name: rad_results
    data_files:
      - split: rad_full
        path: rad_data/rad_full-*
  - config_name: triage_vitals
    data_files:
      - split: triage_vitals_full
        path: triage_vitals_data/triage_vitals_full-*
  - config_name: weight
    data_files:
      - split: weight_full
        path: weight_data/weight_full-*

Cohort Data

Processed ED patient cohort derived from MIMIC-IV. One row per ED visit (ed_stay_id). Built from cohort_base (BigQuery) with the following post-processing steps:

AGAINST ADVICE discharge_location records removed — patient-driven departures are out of scope.
Consecutive ED visits sharing a hadm_id collapsed into single rows; second ed_stay_id stored in ed_stay_id_2.
stay_window_start/stay_window_end columns added covering ED arrival to final discharge.
ed_boarding_time_min added: minutes in ED after admission decision (null for ED-only patients).

Intended as the primary cohort table for feature engineering and RL state construction.

Dispensed Meds

Dispensed medication records for all cohort patients across two phases and two populations.

ED phase (in_er=True): Pyxis dispenses for all patients (admitted and ED-only) while physically in the ED, derived from ed.pyxis.
Ward phase (in_er=False): eMAR administration records for admitted patients from ED departure up to ICU transfer, derived from hosp.emar.

event_txt filtered to administration and rate-change events only.

Medication names mapped to a 22-class drug vocabulary via regex. Each record includes minutes_into_stay (time since ED arrival) and time_step bucket (floor(minutes / time_block)).

ECG Data

ECG acuity labels derived from mimiciv_ecg.machine_measurements for cohort patients. Each of the 18 report columns is classified independently via regex with priority order: abnormal (2) > neutral (1) > normal (0) > empty (-1).

Row-level max across all 18 columns gives ecg_acuity: 0=normal, 1=neutral/unknown, 2=abnormal.

Patients with all 18 columns empty are assigned 1 (missing ECG ≠ normal ECG).

Multiple ECGs per ED stay resolved to one row: highest acuity kept, ties broken by earliest ecg_time.

Window covers ED arrival through hospital ward stay (capped at ICU transfer if applicable), with ±1 hour buffer for ECG machine clock drift.

Labs Data

Laboratory results from hosp.labevents for cohort patients during their stay window.

Grouped by category x fluid (19 unique combinations) rather than individual test label to reduce action space.

Each result includes the abnormal flag for worst-case aggregation. Intended as the primary lab state feature source.

Medrecon Data

Medication reconciliation records from ed.medrecon — medications the patient was taking prior to ED arrival. One row per medication per ED visit. Represents pre-arrival medication state, not actions taken during the visit.

Microbiology Data

Microbiology culture events from hosp.microbiologyevents for cohort patients during their stay window. Includes culture order time, specimen type, organism name, and antibiotic sensitivity results.

culture_ordered is the real-time state signal; culture_positive is a retrospective label only (~2% of results available before ED discharge).

OMR Data

Height and weight measurement records from hosp.omr for cohort patients — separated to take single measurements of height as an average of all available height measurements for a patient and retaining all separate weight measurements. Duplicates were dropped. Used to supplement ED and inpatient state features with recent baseline measurements.

Radiology Data

Radiology report text from mimiciv_note.radiology for cohort patients. Covers all imaging modalities (CXR, CT, MRI, ultrasound, etc.). Primary reports only (note_type=RR). Window covers ED arrival through hospital ward stay (capped at ICU transfer if applicable).
hadm_id is NULL for ED-only patients and populated for admitted patients. exam_name and cpt_code included from radiology_detail to identify imaging modality.

Triage_Vitals

Combined triage and vital signs time series — one row per (ed_stay_id, charttime) timestep. Triage records (ed.triage) provide the baseline reading at ed_intime; subsequent vitals (ed.vitalsign) provide follow-up readings. stay_id remapping applied so that vitals from a patient's second consecutive ED visit are attributed to the canonical (first) stay_id. Rows recorded before ed_intime are dropped; records from vitals with charttime == ed_intime are dropped as duplicates of the triage records.

Preprocessing: pain column normalized and coerced to numeric, physiologically implausible vital values nulled. Missing indicators created before forward-fill. Vitals forward-filled within stay, then mean-imputed for any remaining NaN.

Feature engineering: time_since_last_min, per-column deltas and rates of change (units/min), 1-hour rolling averages, mean arterial pressure (dbp + (sbp - dbp) / 3). Triage rows get 0 for all delta/rate columns. Final vital columns renamed to current_{col}.