This is an implementation of Treefit in R.
Treefit is a novel data analysis toolkit that helps you perform two types of analysis: 1) checking the goodness-of-fit of tree models to your single-cell gene expression data; and 2) deciding which tree best fits your data. Treefit for R can be used in conjunction with other popular software packages, such as Seurat and dynverse.
We'll implement Monocle 3 integration soon.
sudo -H apt install -V -y r-base libcurl4-openssl-dev sudo -H Rscript -e 'install.packages(c("treefit"))'
brew cask install r echo 'options(repos="https://cloud.r-project.org")' >> ~/.Rprofile Rscript -e 'install.packages(c("treefit"))'
The main functions are
fit <- treefit::treefit(YOUR_SINGLE_CELL_GENE_EXPRESSION_DATA) plot(fit)
vignette("treefit") for details.
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