Overview
DOtools is a user-friendly R package designed to streamline common workflows in single-cell RNA sequencing (scRNA-seq) data analysis using the Seurat ecosystem and third-party tools such as scVI, CellTypist, and CellBender. It provides high-level wrappers and visualisation utilities to help efficiently preprocess, analyze, and interpret single-cell data.
Installation
DOtools is currently available through github. To install the package, start R and run:
install.packages("devtools") # if not installed already
devtools::install_github("MarianoRuzJurado/DOtools")We highly recommend having conda installed for python environments. Some functions in this package depend on Python packages or scripts. These functions use basilisk to create isolated environments, which are built using conda. As a result, a working conda installation is required.
Python package
If you prefer python over R for data analysis, we also provide a python version of the DOtools package. Please refer for the python version to: DOtools_py
Contribution Guidelines
Raising up an issue in this Github repository might be the fastest way of submitting suggestions and bugs. Alternatively you can write an email: ruzjurado@med.uni-frankfurt.de