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Show overlap distribution data

create_overlap_distribution_dataset.Rd

Generates the data of frequency of overlap of each amino in the protein sequence.

Usage

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

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.

protein_sequence

data produced by reconstruct_sequence function.

Value

a data.frame object.

Details

This data frame presents how many times (by how many peptides) a amino position in protein sequence is covered. This data is available in the GUI.

See also

read_hdx reconstruct_sequence

Examples

create_overlap_distribution_dataset(alpha_dat)
#> Key: <pos>
#>        pos  amino coverage
#>      <int> <char>    <int>
#>   1:     1      G        1
#>   2:     2      F        2
#>   3:     3      G        3
#>   4:     4      D        3
#>   5:     5      L        5
#>  ---                      
#> 217:   217      D        4
#> 218:   218      V        2
#> 219:   219      A        1
#> 220:   220      A        1
#> 221:   221      F        1