Type: Package
Package: microdiluteR
Title: Analysis of Broth Microdilution Assays
Version: 1.0.1
Date: 2024-04-16
Authors@R: 
    person("Silvia", "Eckert", email = "seckert-dev@posteo.de", role = c("aut", "cre"), 
	comment = c(ORCID = "0000-0002-8896-1046"))
Description: A framework for analyzing broth microdilution assays in various
    96-well plate designs, visualizing results and providing descriptive and (simple)
    inferential statistics (i.e. summary statistics and sign test). The functions are 
    designed to add metadata to 8 x 12 tables of absorption values, creating a tidy
    data frame. Users can choose between clean-up procedures via function 
    parameters (which covers most cases) or user prompts (in cases with complex 
    experimental designs). Users can also choose between two validation methods,
    i.e. exclusion of absorbance values above a certain threshold or manual exclusion 
    of samples. A function for visual inspection of samples with their absorption values
    over time for certain group combinations helps with the decision. In addition,
    the package includes functions to subtract the background absorption (usually
    at time T0) and to calculate the growth performance compared to a baseline.
    Samples can be visually inspected with their absorption values displayed across
    time points for specific group combinations. Core functions of this package (i.e.
    background subtraction, sample validation and statistics) were inspired by the
    manual calculations that were applied in Tewes and Muller (2020)
    <doi:10.1038/s41598-020-67600-7>.
URL: https://silvia-eckert.github.io/microdiluteR/
BugReports: https://github.com/silvia-eckert/microdiluteR/issues
License: GPL (>= 3)
Depends: R (>= 4.3)
Imports: dplyr (>= 1.1.4), ggh4x (>= 0.2.8), ggplot2 (>= 3.5.0),
        ggthemes (>= 5.0.1), magrittr (>= 2.0.3), purrr (>= 1.0.2),
        rlang (>= 1.1.3), rstatix (>= 0.7.2), stringr (>= 1.5.1),
        tibble (>= 3.2.1), tools (>= 4.3.3), vctrs (>= 0.6.5)
Suggests: knitr (>= 1.4.6), rmarkdown (>= 2.26), testthat (>= 3.0.0)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.1
NeedsCompilation: no
Packaged: 2024-05-10 18:10:52 UTC; Silvia
Author: Silvia Eckert [aut, cre] (<https://orcid.org/0000-0002-8896-1046>)
Maintainer: Silvia Eckert <seckert-dev@posteo.de>
Repository: CRAN
Date/Publication: 2024-05-13 11:23:25 UTC
Built: R 4.6.0; ; 2026-05-01 01:58:57 UTC; unix
