getProteinInfoRaw: get protein info (without translation of columns) from a list...

In BenBruyneel/proteinDiscover: ProteinDiscover

get protein info (without translation of columns) from a list of protein Accessions (uniprot code). Essentially this is a wrapper function for dbGetTable

Description

get protein info (without translation of columns) from a list of protein Accessions (uniprot code). Essentially this is a wrapper function for dbGetTable

Usage

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

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")
SQL	allows the function to return the SQL query statement in stead of a data.frame (for debugging purposes)

Value

a data.frame containing requested data from the protein table or a character string specifying an SQL query

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