#> Downloading GitHub repo acgerstein/diskImageR@master
#> from URL https://api.github.com/repos/acgerstein/diskImageR/zipball/master
#> Installing diskImageR
#> '/Library/Frameworks/R.framework/Resources/bin/R' --no-site-file  \
#>   --no-environ --no-save --no-restore --quiet CMD INSTALL  \
#>   '/private/var/folders/v4/jvjcsmnn23nbjfjjptmpbqkr0000gn/T/RtmpJYBycD/devtoolsa8837990e04a/acgerstein-diskImageR-0cfc218'  \
#>   --library='/Library/Frameworks/R.framework/Versions/3.4/Resources/library'  \
#>   --install-tests

diskImageR: Quantification of resistance and tolerance to antimicrobial drugs using disk diffusion assays

Supplementary File S1. diskImageR tutorial

Introduction to diskImageR

The R package diskImageR provides a pipeline to analyze photographs of disk diffusion plates. This removes the need to analyze the plates themselves, and thus analysis can be done separate from the assay. Furthermore, diskImageR removes potential researcher bias, by quantitative assessment of drug resistance as the zone diameter at multiple cutoff values of growth inhibition. This method also extends the disk diffusion assay by measuring drug tolerance (in addition to drug resistance) as the fraction of the subpopulation that is able to grow above the resistance point (“FoG”), and drug sensitivity as the rate of change from no growth to full growth (“slope”).