# DOtools <img src="man/figures/LogoDoTools.png" align="right" width="240"/> <!-- badges: start --> <!-- [](https://bioconductor.org/checkResults/release/bioc-LATEST/DOtools) --> <!-- [](https://bioconductor.org/checkResults/devel/bioc-LATEST/DOtools) --> [](https://github.com/MarianoRuzJurado/DOtools/issues) [](https://github.com/MarianoRuzJurado/DOtools/stargazers) <!-- badges: end --> ## 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. # <b> Installation </b> DOtools is currently available through github. To install the package, start R and run: ``` ruby install.packages("BiocManager") BiocManager::install("DOtools") ``` We highly recommend having [conda](https://www.anaconda.com/docs/getting-started/miniconda/main) installed for python environments. Some functions in this package depend on Python packages or scripts. These functions use [basilisk](https://www.bioconductor.org/packages/release/bioc/html/basilisk.html) to create isolated environments, which are built using conda. As a result, a working conda installation is required. ## <b> Python package </b> 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](https://github.com/davidrm-bio/DOTools_py) ## <b> Contribution Guidelines </b> 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](mailto:ruzjurado@med.uni-frankfurt.de) ## <b> Citation </b> tba