fragment.matched: Fragment assignment tables

In heckendorfc/BTDR: 'BUPID' Top-Down Result Conversion, Analysis, and Visualization

Description

These functions generate tables using information from the fragment assignment module.

fragment.matched.ions generates a matrix containing detailed information about the assigned fragments.

fragment.matched.peaks generates the assigned fragments with matches grouped by matched peak.

fragment.matched.clusters generates a matrix of assignments along with their original m/z and charge state values as seen in the raw spectra.

Usage

fragment.matched.ions(data)

fragment.matched.peaks(data, format = "list")

fragment.matched.clusters(data)

Arguments

data	output from read.bupid
format	decides the return type: list or matrix

Value

Returns the assignment information table.

Returns the matrix of assignments.

Returns the list or matrix of assignments.

Examples

## Not run: 
server <- "http://bupid.bumc.bu.edu/cgi-bin/get_results.cgi"
infile <- "key=WBNqTswT5DPg3aDO&ID=320&date=20150309"
data <- read.bupid(url=paste(server,infile,sep="?"))
fragment.matched.ions(data)
fragment.matched.peaks(data)
fragment.matched.clusters(data)

## End(Not run)

heckendorfc/BTDR documentation built on May 17, 2019, 3:20 p.m.