strip_sequence_MSFragger: Strip sequence from MSFragger outputs

In PepMapViz: A Versatile Toolkit for Peptide Mapping, Visualization, and Comparative Exploration

Strip sequence from MSFragger outputs

Description

This function takes MSFragger output containing a column with peptide sequences to be stripped and converts it into a new dataframe with the stripped sequence

Usage

strip_sequence_MSFragger(data, column, convert_column)

Arguments

data	A dataframe with a column containing peptide sequences to be stripped
column	The name of the column containing the peptide sequences to be stripped.
convert_column	The name of the column where the stripped sequences will be stored.

Value

A dataframe with a column containing stripped sequence

Examples

library(data.table)
data <- data.table(
  'Modified Peptide' = c(
    "AAM[15.9949]Q[-0.98]RGSLYQCDYSTGSC[57.02]EPIR",
    "K.AAQQTGKLVHANFGT.K",
    "K.[0.98]AATVTGKLVHANFGT.K"
  ),
  Condition = c("A", "B", "B")
)
column <- 'Modified Peptide'
convert_column <- 'Sequence'
converted_data <- strip_sequence_MSFragger(data, 'Modified Peptide', 'Sequence')

PepMapViz documentation built on April 3, 2025, 6:29 p.m.