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Show data on peptide overlap

show_overlap_data.Rd

Presents peptide overlap on protein sequence data, based on the supplied parameters.

Usage

show_overlap_data(
  dat,
  protein = dat[["Protein"]][1],
  state = dat[["State"]][1],
  start = min(dat[["Start"]]),
  end = max(dat[["End"]])
)

Arguments

dat

data imported by the read_hdx function.

protein

chosen protein.

state

biological state for chosen protein.

start

start position of chosen protein.

end

end position of chosen protein.

Value

a data.frame object.

Details

The data frame presents all the peptides in given state, with its start and end position on the protein sequence. This data is available in the GUI.

See also

read_hdx plot_overlap

Examples

show_overlap_data(alpha_dat)
#>        Protein    Sequence    ID Start   End
#>         <char>      <char> <int> <int> <int>
#>   1: db_eEF1Ba GFGDLKSPAGL     1     1    11
#>   2: db_eEF1Ba  FGDLKSPAGL     2     2    11
#>   3: db_eEF1Ba   GDLKSPAGL     3     3    11
#>   4: db_eEF1Ba      LKSPAG     4     5    10
#>   5: db_eEF1Ba     LKSPAGL     5     5    11
#>  ---                                        
#> 102: db_eEF1Ba    EDYVQSMD   102   210   217
#> 103: db_eEF1Ba   EDYVQSMDV   103   210   218
#> 104: db_eEF1Ba      DYVQSM   104   211   216
#> 105: db_eEF1Ba      YVQSMD   105   212   217
#> 106: db_eEF1Ba       DVAAF   106   217   221