Clonogenic assay colony growth data

This dataframe contains tracking data based on images clonogenic_assay_images. For every colony, position, time point, size (area [px]) and the momentary growth rate are recorded. This growth rate was calculated using a sliding window of size 3 , where the momentary growth rate λ(t) was calculated as the size difference within the sliding window relative to the colony size at time t. For timepoints where the averaging window exceeded the length of the track, no values were calculated. Together with VisuStatR’s behavior of giving a distinct color to NA values, this can be used to visualize highlight soon-ending tracks in the image data.

Usage

data(clonogenic_assay)

References

Koch RA, Harmel C, Alber M, Bahn E. A framework for automated time-resolved analysis of cell colony growth after irradiation. Phys Med Biol. 2021 Jan 29;66(3):035017. doi: 10.1088/1361-6560/abd00d. PMID: 33264763.

Examples

data(clonogenic_assay)
clonogenic_assay
#> # A tibble: 4,750 × 6
#>    track  time     Y     X  Area moment_gr_rate
#>    <int> <int> <dbl> <dbl> <int>          <dbl>
#>  1     1     0  158. 1066.    29       NA      
#>  2     1     3  158. 1067.    27        0.0988 
#>  3     1     6  158. 1067     37        0.126  
#>  4     1     9  159. 1067.    41        0      
#>  5     1    12  158. 1067     37        0      
#>  6     1    15  159. 1068.    41        0.0569 
#>  7     1    18  159. 1067     44       -0.00758
#>  8     1    21  159. 1066.    40       -0.025  
#>  9     1    24  159. 1067.    41        0.0325 
#> 10     1    27  159. 1067.    44        0.318  
#> # … with 4,740 more rows