getSeqCounts: Retrieve sequence count data

In outbreak-info/R-outbreak-info: outbreak.info R Client

Retrieve sequence count data

Description

Retrieves number of sequences by location, by date of sample collection. See getSubmissionDateByLocation to view similar information by date of sequence submission.

Usage

getSeqCounts(location = NULL, cumulative = NULL, subadmin = NULL)

Arguments

location	(optional) a location name (if not specified, global total counts returned)
cumulative	(optional) Boolean (T/F), T returns cumulative number of sequences to date
subadmin	(optional) Boolean (T/F), subadmin=T and cumulative=T returns cumulative number of sequences for next administrative level

Value

dataframe

Examples

# Retrieves the number of samples sequenced in the U.S. each day, by date of sample collection
getSeqCounts(location="United States")

# Returns the total number of global sequences in the outbreak.info API.
getSeqCounts(cumulative=TRUE)

outbreak-info/R-outbreak-info documentation built on March 2, 2023, 9:58 a.m.