load ncbi taxonomy tree model from the given data files

Ncbi.taxonomy_tree {taxonomy_kit}

R Documentation

load ncbi taxonomy tree model from the given data files

Description

Usage

Ncbi.taxonomy_tree(repo);

Arguments

repo

a directory folder path which contains the NCBI taxonomy tree data files: nodes.dmp and names.dmp. [as string]




        Details

        Builds the following dictionnary from NCBI taxonomy nodes.dmp and names.dmp files


 { Taxid namedtuple('Node', ['name', 'rank', 'parent', 'children']
     } 




https://www.biostars.org/p/13452/
https://pythonhosted.org/ete2/tutorial/tutorial_ncbitaxonomy.html


        Authors

        metagenomics_kit

        Value

        this function returns data object of type NcbiTaxonomyTree.clr value class
NcbiTaxonomyTree

        Examples

         const tree = Ncbi.taxonomy_tree("/dir/path/to/ncbi_taxdump_archive/");

        
        [Package taxonomy_kit version 1.0.0.0 Index]