MIMIC3Dataset: Dataset class for MIMIC-III

MIMIC3Dataset: Dataset class for MIMIC-III

MIMIC3Dataset: Dataset class for MIMIC-III

Usage

# S3 method for class 'initialize'
MIMIC3Dataset(...)

Details

This class inherits from BaseDataset and is specialized for handling MIMIC-III data. It ensures key tables like patients, admissions, and icustays are loaded, and allows appending additional tables. Also provides per-table preprocessing.

Super class

RHealth::BaseDataset -> MIMIC3Dataset

Methods

Public methods

• MIMIC3Dataset$new()

• MIMIC3Dataset$preprocess_noteevents()

• MIMIC3Dataset$clone()

Inherited methods

• RHealth::BaseDataset$collected_global_event_df()
• RHealth::BaseDataset$default_task()
• RHealth::BaseDataset$get_patient()
• RHealth::BaseDataset$iter_patients()
• RHealth::BaseDataset$load_data()
• RHealth::BaseDataset$load_table()
• RHealth::BaseDataset$set_task()
• RHealth::BaseDataset$stats()
• RHealth::BaseDataset$unique_patient_ids()

---

Method new()

initialize MIMIC3Dataset

Usage

MIMIC3Dataset$new(
  root,
  tables = character(),
  dataset_name = NULL,
  config_path = NULL,
  dev = FALSE,
  ...
)

Arguments

root

Root directory of the dataset.

tables

Character vector of extra tables to include.

dataset_name

Optional dataset name.

config_path

Optional path to YAML config file.

dev

Logical flag for dev mode.

...

Additional arguments passed to BaseDataset.

---

Method preprocess_noteevents()

Table-specific preprocessing for noteevents. If charttime is missing, fills it with chartdate + " 00:00:00".

Usage

MIMIC3Dataset$preprocess_noteevents(df)

Arguments

df

A polars LazyFrame.

Returns

A modified LazyFrame.

---

Method clone()

The objects of this class are cloneable with this method.

Usage

MIMIC3Dataset$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.