KEGG.Annotation: KEGG.Annotation

Description Usage Arguments Value Author(s)

View source: R/KEGG.Annotation.R

Description

Annotation of features using KEGG.

Usage

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KEGG.Annotation(dataA, max.mz.diff = 10, num_nodes = 2,
queryadductlist = c("M+2H", "M+H+NH4", "M+ACN+2H",
"M+2ACN+2H", "M+H", "M+NH4", "M+Na", "M+ACN+H",
"M+ACN+Na", "M+2ACN+H", "2M+H", "2M+Na", "2M+ACN+H"),
mode = "pos", outloc)

Arguments

dataA

Feature table from apLCMS or XCMS. The first column should be m/z.

max.mz.diff

Mass tolerance in ppm for database matching. eg: 5

num_nodes

Number of cores to be used for parallel processing. e.g.: 2

queryadductlist

List of adducts to be used for searching. eg: c("M+H","M+Na","M+K"), c("positive") for positive adducts, c("negative") for negative adducts c("all") for all adducts

mode

Ionization mode. e.g.: "pos" or "neg"

outloc

Output folder location

Value

An object with annotation results

Author(s)

Karan Uppal <[email protected]>


jaspershen/MSannotator documentation built on May 17, 2017, 11:49 a.m.