keggtap: Create a keggtap object

In tbradley1013/KEGGerator: Identify genomic functionality with KEGG

Description

Create a keggtap object

Usage

keggtap(pathway_name, kegg_enzyme = NULL, kegg_orthology = NULL,
  kegg_module = NULL, kegg_pathway = NULL, strict = FALSE)

Arguments

pathway_name	a character or character vector that specifies the path or paths that you are interested in
kegg_enzyme	a kegg_tbl generated from the get_kegg_enzymes function. If NULL (default) the kegg_enzymes dataset in this package will be used
kegg_orthology	a kegg_tbl generated from the get_kegg_orthology function. If NULL (default) the kegg_orthologies dataset in this package will be used.
kegg_module	a kegg_tbl generated from the get_kegg_module function. If NULL (default) the kegg_modules dataset in this package will be used
kegg_pathway	a kegg_tbl generated from the get_kegg_pathway function. If NULL (default) the kegg_pathways function will be used.
strict	whether strict matching should be used when matching the pathway_name provided to the pathways in the kegg_pathway dataset. If FALSE (default), regex will be used to match pathways to the provided options. If TRUE, the provided pathways will have to be the same as they are in the dataset (case insensitive)

tbradley1013/KEGGerator documentation built on Feb. 23, 2020, 6:44 a.m.