exportClusterAssignments: Covert clustered tables into format for export

In Scavetta/complexomics: Complexome Profiling Analysis package

Covert clustered tables into format for export

Description

Covert clustered tables into format for export

Usage

exportClusterAssignments(labClustTable, unlabClustTable)

Arguments

labClustTable

output: data frame containing columns: 'Protein Group Accessions' character 'Protein Descriptions' character 'Cluster number - unlabeled' integer 'Cluster number - labeled' integer

unlabClustTable

labClustTable, unlabClustTable: data frames, contain columns: 'Protein Group Accessions' character 'Protein Descriptions' character isLabel character ('TRUE'/'FALSE') - here in one data frame all are TRUE in second one all are FALSE columns 1 to n, numeric, n is the total number of fractions/slices, each of this columns contains 'Precursor Area' values in a given fraction(columns) for a protein(rows) cluster integer

Value

dataframe

Examples

##Use example normalised proteins file
inputFile <- system.file("extData", "dataNormProts.txt", package = "ComPrAn")
#read file in and change structure of table to required format
forAnalysis <- protImportForAnalysis(inputFile)
# create components necessary for clustering
clusteringDF <- clusterComp(forAnalysis,scenar = "A", PearsCor = "centered")
#assign clusters
labTab_clust <- assignClusters(.listDf = clusteringDF,sample = "labeled",
method = 'complete', cutoff = 0.5)
unlabTab_clust <- assignClusters(.listDf = clusteringDF,sample = "unlabeled",
                               method = 'complete', cutoff = 0.5)
#make table of cluster assginment
tableClusterExport <- exportClusterAssignments(labTab_clust,unlabTab_clust)

Scavetta/complexomics documentation built on Oct. 1, 2022, 2:15 a.m.