get_gene_details: Gets details of all available genes associated with accession...

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

Description

get_gene_details

Usage

get_gene_details(feature_name, freq, full_xmlTree)

Arguments

feature_name	Names of genes/features found associated with the accession. Function get_sample_details outputs 'feature_name' value.
freq	Frequency at which each of the 'feature_name' genes/features were found within the XML tree for this accession. Function get_sample_details outputs a 'freq' value associated with 'feature_name' value
full_xmlTree	xml tree downloaded from NCBI website and parsed to R structure with xmlInternalTreeParse - should be provided by earlier stages of the build_genbank_df function.

Details

This function extracts details and sequence data of genes available for each accession from an XML tree

Function designed to sit within build_genbank_df. In general, the input files should be provided by earlier stages of the build_genbank_df function. Extracts details about the accession being investigated, such as species name.

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