The lipid scrambling activity of protein extracts and purified scramblases is often determined using a fluorescence-based assay involving many manual steps. flippant offers an integrated solution for the analysis and publication-grade graphical presentation of dithionite scramblase assays, as well as a platform for review, dissemination and extension of the strategies it employs. The package's name derives from a play on the fact that lipid scrambling is also sometimes referred to as 'flipping'.
R package for the automated analysis of dithionite scramblase assays.
To install the development version, you first need the devtools package.
Then you can install the flippant package using
A stable version is planned to be made available via Bioconductor.
The manuscript is provided in
Rmd form in the
inst/manuscript directory. Note that building the manuscript takes around an hour, since it runs the whole analysis.
The original data in contained in a
zip file in the
inst/extdata directory. Each file within the
zip archive is a text file. Lines 4 through to the penultimate line contain tab delimited text data.
scramblase_assay_traces draws time series of relative fluorescence vs. acquisition time, possibly split by experiment.
scramblase_assay_plot draws plots of the probability of at least one flippase vs. the protein to phospholipid ratio.
scramblase_assay_stats calculates the fit constant for each experiment.
scramblase_assay_calculations provides a lower-level overview of model fit details.