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Get peptide sequence based on the position

get_peptide_sequence.Rd

Gets the peptide sequence based on selected parameters (start and end position, modification).

Usage

get_peptide_sequence(
  dat,
  protein = dat[["Protein"]][1],
  start,
  end,
  modification = FALSE
)

Arguments

dat

any data frame that contains following information: protein, sequence, start, end, modification.

protein

chosen protein.

start

start position of the peptide of interest.

end

end position of the peptide of interest.

modification

logical value to indicate if peptide of interest has modification or not.

Value

a character value.

Details

Function returns peptide sequence for selected parameters. Peptide sequence is often required to properly identify peptide of interest, and to avoid mistakes sequence is returned by the function. Moreover, function uses the modification value to select petide sequence.

See also

read_hdx

Examples

get_peptide_sequence(alpha_dat, start = 1, end = 11)
#> [1] "GFGDLKSPAGL"