daily_lag

outbreak_data.daily_lag(location=None, **req_args)

Get the daily lag between collection and submission dates of clinical sequences in a location.

Parameters

location -- A string containing a location ID. If not specified, return lag globally.

Returns

A pandas dataframe of collection-submission date pairs and clinical sequence counts.

Parameter example

{ 'location': 'USA_US-HI' }

Example Usage

Get the daily lag for SARS-Cov-2 data in Hawaii:

>>> df = outbreak_data.daily_lag('USA_US-HI')
>>> df
                               total_count
date_collected date_submitted
2020-03-05     2020-04-16                1
2020-03-07     2020-04-16                1
2020-03-11     2020-12-31                1
2020-03-12     2020-06-16                2
               2020-12-31                1
...                                    ...
2024-04-24     2024-05-08                3
               2024-05-16                2
2024-04-25     2024-05-16                2
2024-04-27     2024-05-16                1
2024-04-30     2024-05-16                1

[5798 rows x 1 columns]