import_LFQ_PeCorA: import_LFQ_PeCorA
In demar01/PeCorA: Peptide correlation analysis

Description Usage Arguments Details Value Author(s) Examples

View source: R/import_LFQ_PeCorA.R

reads peptide.txt MaxQuant output and process it for PeCorA.

import_LFQ_PeCorA(
  peptides_data,
  protein = "Leading.razor.protein",
  sequence = "Sequence",
  condition1,
  condition2,
  condition3
)

`peptides_data`	imported peptide.txt file output of MaxQuant
`protein`	Leading.razor.protein column
`sequence`	Sequence column (peptide sequence)
`condition1`	experimental condition 1
`condition2`	experimental condition 2
`condition3`	experimental condition 3

output files containing columns: Peptide.Modified.Sequence', Protein, variable,value,Condition,BioReplicate

data frame ready for PeCorA analysis

Maria Dermit maria.dermit@qmul.ac.uk

data(peptides_data_filtered)
pecora_format <- import_LFQ_PeCorA(peptides_data_filtered,
  protein = "Leading.razor.protein",
  sequence = "Sequence", condition1 = "control", condition2 = "_COVID",
  condition3 = "NON.COVID"
)