043-covid

# COVID-19 data Information about Covid is collected in a standalone Covid survey and in the Follow-up Medical Survey in the Human Phenotype Project study.

This Covid survey presents the participants with questions regarding their Covid-19 vaccinations and diagnosis status. It is asked in-person, in every visit to the clinical testing center. Questions asked are related to the participant’s vaccination status, number of vaccine doses and boosters, were participants diagnosed with Covid-19 in the past and were they hospitalized following diagnosis.

### Data availability: The information is stored in 1 parquet file: covid.parquet. The ‘data source’ column indicates which survey the infromation comes from either the initial Covid survey or the Follow-up Medical Survey.

from pheno_utils import PhenoLoader

pl = PhenoLoader('covid')
pl

PhenoLoader for covid with
19 fields
2 tables: ['covid', 'age_sex']

Data dictionary

pl.dict

	folder_id	feature_set	field_string	relative_location	bulk_dictionary	bulk_file_extension	description_string	field_type	array	stability	units	sampling_rate	strata	sexed	debut	completed	pandas_dtype	data_coding
tabular_field_name
collection_timestamp	43	covid	Collection timestamp	covid/covid.parquet	NaN	NaN	Timestamp of measurements collection	Datetime	Single	Accruing	Time	NaN	Collection time	Both sexes	4/26/2021	NaN	datetime64[ns, Asia/Jerusalem]	NaN
collection_date	43	covid	Collection date	covid/covid.parquet	NaN	NaN	Date of measurments collection	Date	Single	Accruing	Time	NaN	Collection time	Both sexes	4/26/2021	NaN	datetime64[ns]	NaN
timezone	43	covid	Timezone	covid/covid.parquet	NaN	NaN	Timezone of the measurments	Categorical (single)	Single	Accruing	NaN	NaN	Collection time	Both sexes	4/26/2021	NaN	category	NaN
covid_vaccinated	43	covid	Were you vaccinated for Covid?	covid/covid.parquet	NaN	NaN	Were you vaccinated for Covid?	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
covid_vaccination_doses_number	43	covid	Number of vaccine doses	covid/covid.parquet	NaN	NaN	Number of vaccine doses	Integer	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	NaN
covid_vaccination_manufacturer	43	covid	Covid vaccine manufacture	covid/covid.parquet	NaN	NaN	Covid vaccine manufacture	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	043_01
covid_vaccination_last_date	43	covid	Date of the last dose of Covid vaccine	covid/covid.parquet	NaN	NaN	Date of the last dose of Covid vaccine	Date	Single	Accruing	Time	NaN	Primary	Both sexes	4/26/2021	NaN	datetime64[ns]	NaN
covid_diagnosed	43	covid	Were you diagnosed with Covid	covid/covid.parquet	NaN	NaN	Were you diagnosed with Covid	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
covid_diagnosed_date	43	covid	What was the date of diagnosis	covid/covid.parquet	NaN	NaN	What was the date of diagnosis	Date	Single	Accruing	Time	NaN	Primary	Both sexes	4/26/2021	NaN	datetime64[ns]	NaN
covid_symptoms	43	covid	Did you develop any symptoms	covid/covid.parquet	NaN	NaN	Did you develop any symptoms	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
covid_hospitalization	43	covid	Were you hopitalized following your Covid diag...	covid/covid.parquet	NaN	NaN	Were you hopitalized following your Covid diag...	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
covid_icu	43	covid	Were you hopitalized at the ICU following your...	covid/covid.parquet	NaN	NaN	Were you hopitalized at the ICU following your...	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
covid_icu_days	43	covid	How many days did you spend in the ICU followi...	covid/covid.parquet	NaN	NaN	How many days did you spend in the ICU followi...	Integer	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	NaN
covid_hospitalization_days	43	covid	How many days were you hospitalized	covid/covid.parquet	NaN	NaN	How many days were you hospitalized	Integer	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	NaN
covid_oxygen	43	covid	Did you require oxygen following diagnosis wit...	covid/covid.parquet	NaN	NaN	Did you require oxygen following diagnosis wit...	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
covid_invasive_respirator	43	covid	Did you require invasive respirator following ...	covid/covid.parquet	NaN	NaN	Did you require invasive respirator following ...	Categorical (single)	Single	Accruing	NaN	NaN	Primary	Both sexes	4/26/2021	NaN	int	7
data_source	43	covid	Data source	covid/covid.parquet	NaN	NaN	Source where data originates from	Text	Single	Accruing	NaN	NaN	Auxiliary	Both sexes	4/26/2021	NaN	string	NaN