Back exchange estimation
calculate_back_exchange.Rd
Calculates back-exchange for a state
Arguments
- dat
data imported by the
read_hdx
function- protein
selected protein
- states
selected biological states for given protein
- time_100
time point of measurement for fully deuterated sample
Value
a data.frame
object
Details
Back-exchange is a reverse exchange phenomenon, important
to acknowledge when working with HDX data. This function calculcates
back-exchange values for one biological state of the selected protein.
For visualization of back-exchange data use plot_coverage_heatmap
with displayed value specified as `back-exchange`.
For the definition of back-exchange see the `vignette("datafiles")`.
Examples
head(calculate_back_exchange(alpha_dat))
#> Protein Start End State Sequence Modification back_exchange
#> 1 db_eEF1Ba 1 11 ALPHA_Gamma GFGDLKSPAGL NA 36.48605
#> 2 db_eEF1Ba 2 11 ALPHA_Gamma FGDLKSPAGL NA 40.99218
#> 3 db_eEF1Ba 3 11 ALPHA_Gamma GDLKSPAGL NA 34.82752
#> 4 db_eEF1Ba 5 10 ALPHA_Gamma LKSPAG NA 41.21163
#> 5 db_eEF1Ba 5 11 ALPHA_Gamma LKSPAGL NA 40.89189
#> 6 db_eEF1Ba 9 14 ALPHA_Gamma AGLQVL NA 37.06240
#> err_back_exchange
#> 1 0.46550621
#> 2 0.36925011
#> 3 0.42056545
#> 4 0.12960786
#> 5 0.06323022
#> 6 0.91755764