typeMatch_link0: Get typeMatch and link0 data frame

In tnaake/MetCirc: Navigating mass spectral similarity in high-resolution MS/MS metabolomics data metabolomics data

Get typeMatch and link0 data frame

Description

typeMatch_link0 returns a list with accessors "link0df" and "type_match"

Usage

typeMatch_link0(similarityMatrix, sps, type, condition)

Arguments

similarityMatrix	matrix with pairwise similarity values
sps	Spectra object
type	character(1), either "mz", "retentionTime", "clustering"
condition	character

Details

Helper function for shinyCircos.

Value

list of length 2, entry link0df is a data.frame and entry type_match is a character vector

Author(s)

Thomas Naake, [e-mail]

Examples

data("spectra", package = "MetCirc")
similarityMat <- Spectra::compareSpectra(sps_tissue[1:10],
    FUN = MsCoreUtils::ndotproduct, ppm = 10, m = 0.5, n = 2)
rownames(similarityMat) <- colnames(similarityMat) <- sps_tissue$name[1:10]

## order according to retention time 
MetCirc:::typeMatch_link0(similarityMatrix = similarityMat, 
    sps = sps_tissue, type = "mz", 
    condition = c("SPL", "LIM", "ANT", "STY"))

tnaake/MetCirc documentation built on April 23, 2023, 8:56 a.m.