getProteinInfo: get protein info (with translation of columns) from a list of...

In BenBruyneel/proteinDiscover: ProteinDiscover

get protein info (with translation of columns) from a list of protein Accessions (uniprot code). Essentially this is a wrapper function for getProteinInfoRaw

Description

get protein info (with translation of columns) from a list of protein Accessions (uniprot code). Essentially this is a wrapper function for getProteinInfoRaw

Usage

getProteinInfo(
  db,
  columns = c("Accession", "ProteinGroupIDs", "AbundancesNormalized", "AbundanceRatios",
    "AbundanceRatioPValue", "AbundanceRatioAdjPValue"),
  proteinAccessions = knockOutProteins()$Accession,
  sortorder = "Accession"
)

Arguments

db	database access 'handle'
columns	allows the selection of columns to take from the table
proteinAccessions	defines which protein(s) info will be retrieved (character vector)
sortorder	allows for sorting of the resulting data.frame by on of it's columns (default = "Accession")

Value

a data.frame containing requested data from the protein table after "translation" of the raw columns

Note

this function uses the default getProteinInfoRaw function. If more control over the "translation" of raw columns is needed, then use getProteinInfoRaw and do the translation manually

BenBruyneel/proteinDiscover documentation built on March 16, 2024, 4:36 p.m.