metadata_extraction {vDiveR}

Metadata Extraction from NCBI/GISAID EpiCoV FASTA file

Description

This function retrieves metadata (ID, country, date) from the NCBI/GISAID EpiCoV FASTA file (default FASTA header expected).

Usage

metadata_extraction(file_path, source)

Arguments

file_path

path of fasta file

source

the source of fasta file, either "ncbi" or "GISAID"

Value

A dataframe that has three columns consisting ID, collected country and collected date

Examples

filepath <- system.file('extdata','GISAID_EpiCoV.faa', package = 'vDiveR')
meta_gisaid <- metadata_extraction(filepath, 'GISAID')