Datasets:
File size: 21,424 Bytes
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from typing import List
from functools import partial
import datasets
import pandas
VERSION = datasets.Version("1.0.0")
DESCRIPTION = "Arhythmia dataset from the UCI ML repository."
_HOMEPAGE = "https://archive-beta.ics.uci.edu/dataset/5/arrhythmia"
_URLS = ("https://archive-beta.ics.uci.edu/dataset/5/arrhythmia")
_CITATION = """
@misc{misc_arrhythmia_5,
author = {Guvenir,H., Acar,Burak & Muderrisoglu,Haldun},
title = {{Arrhythmia}},
year = {1998},
howpublished = {UCI Machine Learning Repository},
note = {{DOI}: \\url{10.24432/C5BS32}}
}"""
# Dataset info
urls_per_split = {
"train": "https://huggingface.co/datasets/mstz/arhythmia/raw/main/arrhythmia.data"
}
features_types_per_config = {
"arhythmia": {
"age": datasets.Value("int8"),
"is_female": datasets.Value("bool"),
"height": datasets.Value("float64"),
"qrs_duration": datasets.Value("float64"),
"p_r_interval": datasets.Value("float64"),
"q_t_interval": datasets.Value("float64"),
"t_interval": datasets.Value("float64"),
"p_interval": datasets.Value("float64"),
"qrs": datasets.Value("float64"),
"t": datasets.Value("float64"),
"p": datasets.Value("float64"),
"qrst": datasets.Value("float64"),
"j": datasets.Value("float64"),
"heart_rate": datasets.Value("float64"),
"average_witdth_of_wave_q_on_DI": datasets.Value("float64"),
"average_witdth_of_wave_r_on_DI": datasets.Value("float64"),
"average_witdth_of_wave_s_on_DI": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_DI": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_DI": datasets.Value("float64"),
"number_of_deflections_on_DI": datasets.Value("float64"),
"type_of_ragged_r_wave_on_DI": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_DI": datasets.Value("float64"),
"type_of_ragged_p_wave_on_DI": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_DI": datasets.Value("float64"),
"type_of_ragged_t_wave_on_DI": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_DI": datasets.Value("float64"),
"average_witdth_of_wave_q_on_DII": datasets.Value("float64"),
"average_witdth_of_wave_r_on_DII": datasets.Value("float64"),
"average_witdth_of_wave_s_on_DII": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_DII": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_DII": datasets.Value("float64"),
"number_of_deflections_on_DII": datasets.Value("float64"),
"type_of_ragged_r_wave_on_DII": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_DII": datasets.Value("float64"),
"type_of_ragged_p_wave_on_DII": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_DII": datasets.Value("float64"),
"type_of_ragged_t_wave_on_DII": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_DII": datasets.Value("float64"),
"average_witdth_of_wave_q_on_DIII": datasets.Value("float64"),
"average_witdth_of_wave_r_on_DIII": datasets.Value("float64"),
"average_witdth_of_wave_s_on_DIII": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_DIII": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_DIII": datasets.Value("float64"),
"number_of_deflections_on_DIII": datasets.Value("float64"),
"type_of_ragged_r_wave_on_DIII": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_DIII": datasets.Value("float64"),
"type_of_ragged_p_wave_on_DIII": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_DIII": datasets.Value("float64"),
"type_of_ragged_t_wave_on_DIII": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_DIII": datasets.Value("float64"),
"average_witdth_of_wave_q_on_AVR": datasets.Value("float64"),
"average_witdth_of_wave_r_on_AVR": datasets.Value("float64"),
"average_witdth_of_wave_s_on_AVR": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_AVR": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_AVR": datasets.Value("float64"),
"number_of_deflections_on_AVR": datasets.Value("float64"),
"type_of_ragged_r_wave_on_AVR": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_AVR": datasets.Value("float64"),
"type_of_ragged_p_wave_on_AVR": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_AVR": datasets.Value("float64"),
"type_of_ragged_t_wave_on_AVR": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_AVR": datasets.Value("float64"),
"average_witdth_of_wave_q_on_AVL": datasets.Value("float64"),
"average_witdth_of_wave_r_on_AVL": datasets.Value("float64"),
"average_witdth_of_wave_s_on_AVL": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_AVL": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_AVL": datasets.Value("float64"),
"number_of_deflections_on_AVL": datasets.Value("float64"),
"type_of_ragged_r_wave_on_AVL": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_AVL": datasets.Value("float64"),
"type_of_ragged_p_wave_on_AVL": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_AVL": datasets.Value("float64"),
"type_of_ragged_t_wave_on_AVL": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_AVL": datasets.Value("float64"),
"average_witdth_of_wave_q_on_AVF": datasets.Value("float64"),
"average_witdth_of_wave_r_on_AVF": datasets.Value("float64"),
"average_witdth_of_wave_s_on_AVF": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_AVF": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_AVF": datasets.Value("float64"),
"number_of_deflections_on_AVF": datasets.Value("float64"),
"type_of_ragged_r_wave_on_AVF": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_AVF": datasets.Value("float64"),
"type_of_ragged_p_wave_on_AVF": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_AVF": datasets.Value("float64"),
"type_of_ragged_t_wave_on_AVF": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_AVF": datasets.Value("float64"),
"average_witdth_of_wave_q_on_V1": datasets.Value("float64"),
"average_witdth_of_wave_r_on_V1": datasets.Value("float64"),
"average_witdth_of_wave_s_on_V1": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_V1": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_V1": datasets.Value("float64"),
"number_of_deflections_on_V1": datasets.Value("float64"),
"type_of_ragged_r_wave_on_V1": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_V1": datasets.Value("float64"),
"type_of_ragged_p_wave_on_V1": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_V1": datasets.Value("float64"),
"type_of_ragged_t_wave_on_V1": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_V1": datasets.Value("float64"),
"average_witdth_of_wave_q_on_V2": datasets.Value("float64"),
"average_witdth_of_wave_r_on_V2": datasets.Value("float64"),
"average_witdth_of_wave_s_on_V2": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_V2": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_V2": datasets.Value("float64"),
"number_of_deflections_on_V2": datasets.Value("float64"),
"type_of_ragged_r_wave_on_V2": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_V2": datasets.Value("float64"),
"type_of_ragged_p_wave_on_V2": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_V2": datasets.Value("float64"),
"type_of_ragged_t_wave_on_V2": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_V2": datasets.Value("float64"),
"average_witdth_of_wave_q_on_V3": datasets.Value("float64"),
"average_witdth_of_wave_r_on_V3": datasets.Value("float64"),
"average_witdth_of_wave_s_on_V3": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_V3": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_V3": datasets.Value("float64"),
"number_of_deflections_on_V3": datasets.Value("float64"),
"type_of_ragged_r_wave_on_V3": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_V3": datasets.Value("float64"),
"type_of_ragged_p_wave_on_V3": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_V3": datasets.Value("float64"),
"type_of_ragged_t_wave_on_V3": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_V3": datasets.Value("float64"),
"average_witdth_of_wave_q_on_V4": datasets.Value("float64"),
"average_witdth_of_wave_r_on_V4": datasets.Value("float64"),
"average_witdth_of_wave_s_on_V4": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_V4": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_V4": datasets.Value("float64"),
"number_of_deflections_on_V4": datasets.Value("float64"),
"type_of_ragged_r_wave_on_V4": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_V4": datasets.Value("float64"),
"type_of_ragged_p_wave_on_V4": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_V4": datasets.Value("float64"),
"type_of_ragged_t_wave_on_V4": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_V4": datasets.Value("float64"),
"average_witdth_of_wave_q_on_V5": datasets.Value("float64"),
"average_witdth_of_wave_r_on_V5": datasets.Value("float64"),
"average_witdth_of_wave_s_on_V5": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_V5": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_V5": datasets.Value("float64"),
"number_of_deflections_on_V5": datasets.Value("float64"),
"type_of_ragged_r_wave_on_V5": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_V5": datasets.Value("float64"),
"type_of_ragged_p_wave_on_V5": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_V5": datasets.Value("float64"),
"type_of_ragged_t_wave_on_V5": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_V5": datasets.Value("float64"),
"average_witdth_of_wave_q_on_V6": datasets.Value("float64"),
"average_witdth_of_wave_r_on_V6": datasets.Value("float64"),
"average_witdth_of_wave_s_on_V6": datasets.Value("float64"),
"average_witdth_of_wave_rprime_on_V6": datasets.Value("float64"),
"average_witdth_of_wave_sprime_on_V6": datasets.Value("float64"),
"number_of_deflections_on_V6": datasets.Value("float64"),
"type_of_ragged_r_wave_on_V6": datasets.Value("float64"),
"type_of_diphasic_derivation_of_r_wave_on_V6": datasets.Value("float64"),
"type_of_ragged_p_wave_on_V6": datasets.Value("float64"),
"type_of_diphasic_derivation_of_p_wave_on_V6": datasets.Value("float64"),
"type_of_ragged_t_wave_on_V6": datasets.Value("float64"),
"type_of_diphasic_derivation_of_t_wave_on_V6": datasets.Value("float64"),
"amplitude_of_jj_wave_on_DI": datasets.Value("float64"),
"amplitude_of_q_wave_on_DI": datasets.Value("float64"),
"amplitude_of_r_wave_on_DI": datasets.Value("float64"),
"amplitude_of_s_wave_on_DI": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_DI": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_DI": datasets.Value("float64"),
"amplitude_of_p_wave_on_DI": datasets.Value("float64"),
"amplitude_of_t_wave_on_DI": datasets.Value("float64"),
"qrsa_on_DI": datasets.Value("float64"),
"qrsta_on_DI": datasets.Value("float64"),
"amplitude_of_jj_wave_on_DII": datasets.Value("float64"),
"amplitude_of_q_wave_on_DII": datasets.Value("float64"),
"amplitude_of_r_wave_on_DII": datasets.Value("float64"),
"amplitude_of_s_wave_on_DII": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_DII": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_DII": datasets.Value("float64"),
"amplitude_of_p_wave_on_DII": datasets.Value("float64"),
"amplitude_of_t_wave_on_DII": datasets.Value("float64"),
"qrsa_on_DII": datasets.Value("float64"),
"qrsta_on_DII": datasets.Value("float64"),
"amplitude_of_jj_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_q_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_r_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_s_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_p_wave_on_DIII": datasets.Value("float64"),
"amplitude_of_t_wave_on_DIII": datasets.Value("float64"),
"qrsa_on_DIII": datasets.Value("float64"),
"qrsta_on_DIII": datasets.Value("float64"),
"amplitude_of_jj_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_q_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_r_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_s_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_p_wave_on_AVR": datasets.Value("float64"),
"amplitude_of_t_wave_on_AVR": datasets.Value("float64"),
"qrsa_on_AVR": datasets.Value("float64"),
"qrsta_on_AVR": datasets.Value("float64"),
"amplitude_of_jj_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_q_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_r_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_s_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_p_wave_on_AVL": datasets.Value("float64"),
"amplitude_of_t_wave_on_AVL": datasets.Value("float64"),
"qrsa_on_AVL": datasets.Value("float64"),
"qrsta_on_AVL": datasets.Value("float64"),
"amplitude_of_jj_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_q_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_r_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_s_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_p_wave_on_AVF": datasets.Value("float64"),
"amplitude_of_t_wave_on_AVF": datasets.Value("float64"),
"qrsa_on_AVF": datasets.Value("float64"),
"qrsta_on_AVF": datasets.Value("float64"),
"amplitude_of_jj_wave_on_V1": datasets.Value("float64"),
"amplitude_of_q_wave_on_V1": datasets.Value("float64"),
"amplitude_of_r_wave_on_V1": datasets.Value("float64"),
"amplitude_of_s_wave_on_V1": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_V1": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_V1": datasets.Value("float64"),
"amplitude_of_p_wave_on_V1": datasets.Value("float64"),
"amplitude_of_t_wave_on_V1": datasets.Value("float64"),
"qrsa_on_V1": datasets.Value("float64"),
"qrsta_on_V1": datasets.Value("float64"),
"amplitude_of_jj_wave_on_V2": datasets.Value("float64"),
"amplitude_of_q_wave_on_V2": datasets.Value("float64"),
"amplitude_of_r_wave_on_V2": datasets.Value("float64"),
"amplitude_of_s_wave_on_V2": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_V2": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_V2": datasets.Value("float64"),
"amplitude_of_p_wave_on_V2": datasets.Value("float64"),
"amplitude_of_t_wave_on_V2": datasets.Value("float64"),
"qrsa_on_V2": datasets.Value("float64"),
"qrsta_on_V2": datasets.Value("float64"),
"amplitude_of_jj_wave_on_V3": datasets.Value("float64"),
"amplitude_of_q_wave_on_V3": datasets.Value("float64"),
"amplitude_of_r_wave_on_V3": datasets.Value("float64"),
"amplitude_of_s_wave_on_V3": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_V3": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_V3": datasets.Value("float64"),
"amplitude_of_p_wave_on_V3": datasets.Value("float64"),
"amplitude_of_t_wave_on_V3": datasets.Value("float64"),
"qrsa_on_V3": datasets.Value("float64"),
"qrsta_on_V3": datasets.Value("float64"),
"amplitude_of_jj_wave_on_V4": datasets.Value("float64"),
"amplitude_of_q_wave_on_V4": datasets.Value("float64"),
"amplitude_of_r_wave_on_V4": datasets.Value("float64"),
"amplitude_of_s_wave_on_V4": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_V4": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_V4": datasets.Value("float64"),
"amplitude_of_p_wave_on_V4": datasets.Value("float64"),
"amplitude_of_t_wave_on_V4": datasets.Value("float64"),
"qrsa_on_V4": datasets.Value("float64"),
"qrsta_on_V4": datasets.Value("float64"),
"amplitude_of_jj_wave_on_V5": datasets.Value("float64"),
"amplitude_of_q_wave_on_V5": datasets.Value("float64"),
"amplitude_of_r_wave_on_V5": datasets.Value("float64"),
"amplitude_of_s_wave_on_V5": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_V5": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_V5": datasets.Value("float64"),
"amplitude_of_p_wave_on_V5": datasets.Value("float64"),
"amplitude_of_t_wave_on_V5": datasets.Value("float64"),
"qrsa_on_V5": datasets.Value("float64"),
"qrsta_on_V5": datasets.Value("float64"),
"amplitude_of_jj_wave_on_V6": datasets.Value("float64"),
"amplitude_of_q_wave_on_V6": datasets.Value("float64"),
"amplitude_of_r_wave_on_V6": datasets.Value("float64"),
"amplitude_of_s_wave_on_V6": datasets.Value("float64"),
"amplitude_of_rprime_wave_on_V6": datasets.Value("float64"),
"amplitude_of_sprime_wave_on_V6": datasets.Value("float64"),
"amplitude_of_p_wave_on_V6": datasets.Value("float64"),
"amplitude_of_t_wave_on_V6": datasets.Value("float64"),
"qrsa_on_V6": datasets.Value("float64"),
"qrsta_on_V6": datasets.Value("float64"),
"type_of_arhythmia": datasets.ClassLabel(num_classes=16, names=["no_arhytmia"] + [f"arhytmia_of_type_{f}" for f in range(2, 16)] + ["unknown_arhytmia"])
}
}
features_per_config = {k: datasets.Features(features_types_per_config[k]) for k in features_types_per_config}
class ArrhythmiaConfig(datasets.BuilderConfig):
def __init__(self, **kwargs):
super(ArrhythmiaConfig, self).__init__(version=VERSION, **kwargs)
self.features = features_per_config[kwargs["name"]]
class Arrhythmia(datasets.GeneratorBasedBuilder):
# dataset versions
DEFAULT_CONFIG = "arhythmia"
BUILDER_CONFIGS = [
ArrhythmiaConfig(name="arhythmia",
description="Multiclass classification of arhythmia type."),
]
def _info(self):
info = datasets.DatasetInfo(description=DESCRIPTION, citation=_CITATION, homepage=_HOMEPAGE,
features=features_per_config[self.config.name])
return info
def _split_generators(self, dl_manager: datasets.DownloadManager) -> List[datasets.SplitGenerator]:
downloads = dl_manager.download_and_extract(urls_per_split)
return [
datasets.SplitGenerator(name=datasets.Split.TRAIN, gen_kwargs={"filepath": downloads["train"]})
]
def _generate_examples(self, filepath: str):
data = pandas.read_csv(filepath)
data = self.preprocess(data, config=self.config.name)
for row_id, row in data.iterrows():
data_row = dict(row)
yield row_id, data_row
def preprocess(self, data: pandas.DataFrame, config: str = DEFAULT_CONFIG) -> pandas.DataFrame:
data = data[(data.t != "?") & (data.qrst != "?") & (data.p != "?") & (data.j != "?") & (data.heart_rate != "?")]
data = data.astype({"t": int, "qrst": int, "p": int, "j": int, "heart_rate": int})
print(list(data.columns))
print("type_of_arhythmia" in data.columns)
return data[list(features_types_per_config[config].keys())]
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