build_genbank_df: Builds a reference data frame with details of all available...

In EvolEcolGroup/mtDNAcombine: R package to download, combine, and curate sequences from public databases

Description

build_genbank_df

Usage

build_genbank_df(accession_file_name)

Arguments

accession_file_name

user provided file name which lists accession numbers. Should be a .csv or .txt file without a header.

Details

This function extracts and collates details of all available genes (as well as the species scientific name) for each accession given.

Function designed to construct a raw reference data frame of all sequence information available for each of the accession numbers given. Uses functions load_accession_list, get_sample_details, and get_gene_details to extract information from NCBI website. Output will need downstream processing to remove duplicated pieces of information and to clarify any nomlenclature issues for example.

EvolEcolGroup/mtDNAcombine documentation built on July 8, 2021, 10:30 p.m.