The goal of Genesee is to set up assay-specific analysis templates for various transcriptomic modalities, including scRNAseq, scVDJ and bulk RNAseq.
You can install it from GitHub with:
# install.packages("devtools")
devtools::install_github("amcdavid/Genesee")You will also need to install GeneseeSC and GeneseeBulk, which contain the templates for this to be useful.
Initialize a project titled ‘title’ at ‘path/to/projects/investigator/title’ and copy down scRNA template files.
library(Genesee)
library(GeneseeSC)
genesee_skeleton('path/to/projects', 'investigator', 'title', author = 'Andrew', project_type = 'scRNA')