# countfitteR package - an overview

#### Jarosław Chilimoniuk, Madleine Ruhe, Stefan Rödiger, Michał Burdukiewicz

#### 2019-01-27

# 1 Introduction

countfitteR is a R package and shiny app designed to perform analysis of count data. This vignette covers important features and data sets of the app. We extended our automatized imaging platform (Rödiger et al. 2013, Willitzki et al. (2012)) for a multiparametric analysis of cell damage (DNA double strand breaks) (Reddig et al. 2018, Rödiger et al. (2018)). Digital image analysis of the DSB biomarkers gamma H2AX was used to describe the alteration of the cell phenotype.

# 2 Data sets

    # Load countfitteR package
    library(countfitteR)

    # Assign the csv file to filename
    data("case_study")

    processed_counts <- process_counts(case_study)

    fit_counts(processed_counts, model = "all")

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning in theta.ml(Y, mu, sum(w), w, limit = control$maxit, trace =
    ## control$trace > : iteration limit reached

    ## Warning in sqrt(1/i): NaNs produced

    ## Warning in theta.ml(Y, mu, sum(w), w, limit = control$maxit, trace =
    ## control$trace > : iteration limit reached

    ## Warning in sqrt(1/i): NaNs produced

    ## Warning in theta.ml(Y, mu, sum(w), w, limit = control$maxit, trace =
    ## control$trace > : iteration limit reached

    ## Warning in sqrt(1/i): NaNs produced

    ## Warning in theta.ml(Y, mu, sum(w), w, limit = control$maxit, trace =
    ## control$trace > : iteration limit reached

    ## Warning in sqrt(1/i): NaNs produced

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## Warning: glm.fit: algorithm did not converge

    ## $L3_AF_DMSO_B_10_FITC_pois
    ## $L3_AF_DMSO_B_10_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_100_ETP_11_FITC_pois
    ## $L3_AF_100_ETP_11_FITC_pois$coefficients
    ## lambda
    ##   2.32
    ##
    ## $L3_AF_100_ETP_11_FITC_pois$confint
    ##           lower    upper
    ## lambda 2.034125 2.631462
    ##
    ## $L3_AF_100_ETP_11_FITC_pois$BIC
    ## [1] 898.1618
    ##
    ## $L3_AF_100_ETP_11_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_100_ETP_12_FITC_pois
    ## $L3_AF_100_ETP_12_FITC_pois$coefficients
    ##   lambda
    ## 3.215686
    ##
    ## $L3_AF_100_ETP_12_FITC_pois$confint
    ##           lower    upper
    ## lambda 2.880112 3.576346
    ##
    ## $L3_AF_100_ETP_12_FITC_pois$BIC
    ## [1] 1008.888
    ##
    ## $L3_AF_100_ETP_12_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_Med_C_13_FITC_pois
    ## $L3_AF_Med_C_13_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_13_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_13_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_13_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_Med_C_14_FITC_pois
    ## $L3_AF_Med_C_14_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_14_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_14_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_14_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_DMSo_C_15_FITC_pois
    ## $L3_AF_DMSo_C_15_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_DMSO_C_16_FITC_pois
    ## $L3_AF_DMSO_C_16_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_100_ETP_17_FITC_pois
    ## $L3_AF_100_ETP_17_FITC_pois$coefficients
    ##   lambda
    ## 5.571429
    ##
    ## $L3_AF_100_ETP_17_FITC_pois$confint
    ##           lower    upper
    ## lambda 5.132054 6.035173
    ##
    ## $L3_AF_100_ETP_17_FITC_pois$BIC
    ## [1] 1254.79
    ##
    ## $L3_AF_100_ETP_17_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_100_ETP_18_FITC_pois
    ## $L3_AF_100_ETP_18_FITC_pois$coefficients
    ## lambda
    ##   4.13
    ##
    ## $L3_AF_100_ETP_18_FITC_pois$confint
    ##          lower    upper
    ## lambda 3.74438 4.541207
    ##
    ## $L3_AF_100_ETP_18_FITC_pois$BIC
    ## [1] 852.1981
    ##
    ## $L3_AF_100_ETP_18_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_Med_D_19_FITC_pois
    ## $L3_AF_Med_D_19_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_19_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_19_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_19_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_Med_A_1_FITC_pois
    ## $L3_AF_Med_A_1_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_A_1_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_A_1_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_A_1_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_Med_D_20_FITC_pois
    ## $L3_AF_Med_D_20_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_20_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_20_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_20_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_DMSo_D_21_FITC_pois
    ## $L3_AF_DMSo_D_21_FITC_pois$coefficients
    ##     lambda
    ## 0.03921569
    ##
    ## $L3_AF_DMSo_D_21_FITC_pois$confint
    ##             lower      upper
    ## lambda 0.01217225 0.09108786
    ##
    ## $L3_AF_DMSo_D_21_FITC_pois$BIC
    ## [1] 44.89051
    ##
    ## $L3_AF_DMSo_D_21_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_DMSO_D_22_FITC_pois
    ## $L3_AF_DMSO_D_22_FITC_pois$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_pois$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_pois$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_100_ETP_23_FITC_pois
    ## $L3_AF_100_ETP_23_FITC_pois$coefficients
    ##   lambda
    ## 3.252427
    ##
    ## $L3_AF_100_ETP_23_FITC_pois$confint
    ##           lower    upper
    ## lambda 2.916454 3.613242
    ##
    ## $L3_AF_100_ETP_23_FITC_pois$BIC
    ## [1] 904.4198
    ##
    ## $L3_AF_100_ETP_23_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_100_ETP_24_FITC_pois
    ## $L3_AF_100_ETP_24_FITC_pois$coefficients
    ##   lambda
    ## 4.122642
    ##
    ## $L3_AF_100_ETP_24_FITC_pois$confint
    ##           lower    upper
    ## lambda 3.748088 4.521334
    ##
    ## $L3_AF_100_ETP_24_FITC_pois$BIC
    ## [1] 1069.925
    ##
    ## $L3_AF_100_ETP_24_FITC_pois$model
    ## [1] "pois"
    ##
    ##
    ## $L3_AF_DMSO_B_10_FITC_zip
    ## $L3_AF_DMSO_B_10_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_100_ETP_11_FITC_zip
    ## $L3_AF_100_ETP_11_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_11_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_11_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_11_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_100_ETP_12_FITC_zip
    ## $L3_AF_100_ETP_12_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_12_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_12_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_12_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_Med_C_13_FITC_zip
    ## $L3_AF_Med_C_13_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_13_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_13_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_13_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_Med_C_14_FITC_zip
    ## $L3_AF_Med_C_14_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_14_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_14_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_14_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_DMSo_C_15_FITC_zip
    ## $L3_AF_DMSo_C_15_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_DMSO_C_16_FITC_zip
    ## $L3_AF_DMSO_C_16_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_100_ETP_17_FITC_zip
    ## $L3_AF_100_ETP_17_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_17_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_17_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_17_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_100_ETP_18_FITC_zip
    ## $L3_AF_100_ETP_18_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_18_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_18_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_18_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_Med_D_19_FITC_zip
    ## $L3_AF_Med_D_19_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_19_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_19_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_19_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_Med_A_1_FITC_zip
    ## $L3_AF_Med_A_1_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_A_1_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_A_1_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_A_1_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_Med_D_20_FITC_zip
    ## $L3_AF_Med_D_20_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_20_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_20_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_20_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_DMSo_D_21_FITC_zip
    ## $L3_AF_DMSo_D_21_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSo_D_21_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSo_D_21_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSo_D_21_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_DMSO_D_22_FITC_zip
    ## $L3_AF_DMSO_D_22_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_100_ETP_23_FITC_zip
    ## $L3_AF_100_ETP_23_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_23_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_23_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_23_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_100_ETP_24_FITC_zip
    ## $L3_AF_100_ETP_24_FITC_zip$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_24_FITC_zip$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_24_FITC_zip$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_24_FITC_zip$model
    ## [1] "zip"
    ##
    ##
    ## $L3_AF_DMSO_B_10_FITC_nb
    ## $L3_AF_DMSO_B_10_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_100_ETP_11_FITC_nb
    ## $L3_AF_100_ETP_11_FITC_nb$coefficients
    ##     lambda      theta
    ## 2.32000000 0.08621744
    ##
    ## $L3_AF_100_ETP_11_FITC_nb$confint
    ##           lower    upper
    ## lambda 1.253128 4.963705
    ##
    ## $L3_AF_100_ETP_11_FITC_nb$BIC
    ## [1] 283.9301
    ##
    ## $L3_AF_100_ETP_11_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_100_ETP_12_FITC_nb
    ## $L3_AF_100_ETP_12_FITC_nb$coefficients
    ##       lambda        theta
    ##     3.215686 42652.988203
    ##
    ## $L3_AF_100_ETP_12_FITC_nb$confint
    ##           lower    upper
    ## lambda 2.880101 3.576366
    ##
    ## $L3_AF_100_ETP_12_FITC_nb$BIC
    ## [1] 1013.438
    ##
    ## $L3_AF_100_ETP_12_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_Med_C_13_FITC_nb
    ## $L3_AF_Med_C_13_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_13_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_13_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_13_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_Med_C_14_FITC_nb
    ## $L3_AF_Med_C_14_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_14_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_14_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_14_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_DMSo_C_15_FITC_nb
    ## $L3_AF_DMSo_C_15_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_DMSO_C_16_FITC_nb
    ## $L3_AF_DMSO_C_16_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_100_ETP_17_FITC_nb
    ## $L3_AF_100_ETP_17_FITC_nb$coefficients
    ##    lambda     theta
    ## 5.5714286 0.3442529
    ##
    ## $L3_AF_100_ETP_17_FITC_nb$confint
    ##           lower    upper
    ## lambda 4.044737 7.934676
    ##
    ## $L3_AF_100_ETP_17_FITC_nb$BIC
    ## [1] 555.458
    ##
    ## $L3_AF_100_ETP_17_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_100_ETP_18_FITC_nb
    ## $L3_AF_100_ETP_18_FITC_nb$coefficients
    ##    lambda     theta
    ## 4.1300000 0.3921204
    ##
    ## $L3_AF_100_ETP_18_FITC_nb$confint
    ##           lower    upper
    ## lambda 3.018285 5.821316
    ##
    ## $L3_AF_100_ETP_18_FITC_nb$BIC
    ## [1] 490.2015
    ##
    ## $L3_AF_100_ETP_18_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_Med_D_19_FITC_nb
    ## $L3_AF_Med_D_19_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_19_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_19_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_19_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_Med_A_1_FITC_nb
    ## $L3_AF_Med_A_1_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_A_1_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_A_1_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_A_1_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_Med_D_20_FITC_nb
    ## $L3_AF_Med_D_20_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_20_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_20_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_20_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_DMSo_D_21_FITC_nb
    ## $L3_AF_DMSo_D_21_FITC_nb$coefficients
    ##       lambda        theta
    ## 3.921569e-02 3.132226e+03
    ##
    ## $L3_AF_DMSo_D_21_FITC_nb$confint
    ##             lower      upper
    ## lambda 0.01217194 0.09107713
    ##
    ## $L3_AF_DMSo_D_21_FITC_nb$BIC
    ## [1] 49.5117
    ##
    ## $L3_AF_DMSo_D_21_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_DMSO_D_22_FITC_nb
    ## $L3_AF_DMSO_D_22_FITC_nb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_nb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_nb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_100_ETP_23_FITC_nb
    ## $L3_AF_100_ETP_23_FITC_nb$coefficients
    ##    lambda     theta
    ## 3.2524272 0.2332405
    ##
    ## $L3_AF_100_ETP_23_FITC_nb$confint
    ##           lower  upper
    ## lambda 2.199997 5.0534
    ##
    ## $L3_AF_100_ETP_23_FITC_nb$BIC
    ## [1] 426.6125
    ##
    ## $L3_AF_100_ETP_23_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_100_ETP_24_FITC_nb
    ## $L3_AF_100_ETP_24_FITC_nb$coefficients
    ##    lambda     theta
    ## 4.1226415 0.2386911
    ##
    ## $L3_AF_100_ETP_24_FITC_nb$confint
    ##           lower    upper
    ## lambda 2.823521 6.314809
    ##
    ## $L3_AF_100_ETP_24_FITC_nb$BIC
    ## [1] 481.1145
    ##
    ## $L3_AF_100_ETP_24_FITC_nb$model
    ## [1] "nb"
    ##
    ##
    ## $L3_AF_DMSO_B_10_FITC_zinb
    ## $L3_AF_DMSO_B_10_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_B_10_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_100_ETP_11_FITC_zinb
    ## $L3_AF_100_ETP_11_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_11_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_11_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_11_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_100_ETP_12_FITC_zinb
    ## $L3_AF_100_ETP_12_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_12_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_12_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_12_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_Med_C_13_FITC_zinb
    ## $L3_AF_Med_C_13_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_13_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_13_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_13_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_Med_C_14_FITC_zinb
    ## $L3_AF_Med_C_14_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_C_14_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_C_14_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_C_14_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_DMSo_C_15_FITC_zinb
    ## $L3_AF_DMSo_C_15_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSo_C_15_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_DMSO_C_16_FITC_zinb
    ## $L3_AF_DMSO_C_16_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_C_16_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_100_ETP_17_FITC_zinb
    ## $L3_AF_100_ETP_17_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_17_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_17_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_17_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_100_ETP_18_FITC_zinb
    ## $L3_AF_100_ETP_18_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_18_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_18_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_18_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_Med_D_19_FITC_zinb
    ## $L3_AF_Med_D_19_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_19_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_19_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_19_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_Med_A_1_FITC_zinb
    ## $L3_AF_Med_A_1_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_A_1_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_A_1_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_A_1_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_Med_D_20_FITC_zinb
    ## $L3_AF_Med_D_20_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_Med_D_20_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_Med_D_20_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_Med_D_20_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_DMSo_D_21_FITC_zinb
    ## $L3_AF_DMSo_D_21_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSo_D_21_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSo_D_21_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSo_D_21_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_DMSO_D_22_FITC_zinb
    ## $L3_AF_DMSO_D_22_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_DMSO_D_22_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_100_ETP_23_FITC_zinb
    ## $L3_AF_100_ETP_23_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_23_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_23_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_23_FITC_zinb$model
    ## [1] "zinb"
    ##
    ##
    ## $L3_AF_100_ETP_24_FITC_zinb
    ## $L3_AF_100_ETP_24_FITC_zinb$coefficients
    ## lambda
    ##     NA
    ##
    ## $L3_AF_100_ETP_24_FITC_zinb$confint
    ##        lower upper
    ## lambda    NA    NA
    ##
    ## $L3_AF_100_ETP_24_FITC_zinb$BIC
    ## [1] NA
    ##
    ## $L3_AF_100_ETP_24_FITC_zinb$model
    ## [1] "zinb"

# References

Reddig, Annika, Claudia E. Rübe, Stefan Rödiger, Peter Schierack, Dirk Reinhold, and Dirk Roggenbuck. 2018. “DNA Damage Assessment and Potential Applications in Laboratory Diagnostics and Precision Medicine.” Journal of Laboratory and Precision Medicine 3 (4). http://jlpm.amegroups.com/article/view/4305.

Rödiger, Stefan, Marius Liefold, Madeleine Ruhe, Mark Reinwald, Eberhard Beck, and P. Markus Deckert. 2018. “Quantification of DNA Double-Strand Breaks in Peripheral Blood Mononuclear Cells from Healthy Donors Exposed to Bendamustine by an Automated γH2AX Assay—an Exploratory Study.” Journal of Laboratory and Precision Medicine 3 (5). http://jlpm.amegroups.com/article/view/4370.

Rödiger, Stefan, Peter Schierack, Alexander Böhm, Jörg Nitschke, Ingo Berger, Ulrike Frömmel, Carsten Schmidt, et al. 2013. “A Highly Versatile Microscope Imaging Technology Platform for the Multiplex Real-Time Detection of Biomolecules and Autoimmune Antibodies.” Advances in Biochemical Engineering/Biotechnology 133: 35–74. doi:10.1007/10_2011_132.

Willitzki, Annika, Rico Hiemann, Vanessa Peters, Ulrich Sack, Peter Schierack, Stefan Rödiger, Ursula Anderer, et al. 2012. “New Platform Technology for Comprehensive Serological Diagnostics of Autoimmune Diseases.” Clinical & Developmental Immunology 2012: 284740. doi:10.1155/2012/284740.