transPhyloKEGG2NCBI: Get NCBI Taxonomy ID From KEGG ID

In YulongNiu/KEGGAPI: A package for providing KEGG databases API in R

Description

KEGG Database Additional API - Get the NCBI taxonomy ID from a given KEGG ID

Usage

transPhyloKEGG2NCBI(specIDs, n = 1)

Arguments

specIDs	A vector of KEGG species IDs, for example c('hsa', 'eco').
n	The number of CPUs or processors, and the default value is 1.

Details

NCBI taxonomy ID is used as unique ID accoss KEGG and BioCyc databases. This functions is used to get the corresponding NCBI Taxonomy ID from KEGG.

————————- I need to change it using KEGG API ————————-

Value

The corresponding NCBI Taxonomy ID in character vector.

Author(s)

Yulong Niu [e-mail]

Examples

## get human and Ecoli NCBI taxonomy ID with 2 threads
transPhyloKEGG2NCBI(c('hsa', 'eco', 'ath', 'smu'), n = 2)

## Not run: 
## transfer all KEGG species ID to NCBI taxonomy ID
wKEGGSpe <- getKEGGPhylo(whole = TRUE)
wNCBISpe <- transPhyloKEGG2NCBI(wKEGGSpe[, 2])

## End(Not run)

YulongNiu/KEGGAPI documentation built on May 10, 2019, 1:12 a.m.