simpleSeg provides a structured pipeline for segmentation of cellular tiff stacks and the normalization of features, priming cells for classification / clustering.
A brief preview of simpleSeg can be found here, and integration with further analysis is explained in detail here.
Install the package from Bioconductor.
if (!requireNamespace("BiocManager", quietly = TRUE)) {
install.packages("BiocManager")
}
BiocManager::install("simpleSeg")
Otherwise, install the development version from Github.
# Install the development version from GitHub:
# install.packages("devtools")
devtools::install_github("SydneyBioX/simpleSeg")
library(simpleSeg)
Usually caused by non-R dependencies being unavailable. Ensure that the following packages are installed on your system.
fftw, gdal, fortran, arrow
simpleSeg is still under active development. We would greatly appreciate any and all feedback related to the package.
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