Utility functions for data from single-cell experiments

The singlecellutils package provides auxillary functions to work with data from single cell RNAseq data.

Features

  • Easy and versatile sample/feature filtering with filter_samples and filter_features
  • Implements TF-IDF weighting, e.g. for data from single-cell ATAC-seq
  • Provides easy access to new dimension reduction methods, like randomized SVD and UMAP
  • Provides access to the powerful hierarchical density-based clustering HDBSCAN
  • Most methods are suitable for magrittr pipelines

Installation

Install the latest development version from GitHub:

remotes::install_github("jenzopr/singlecellutils")

Contribution

Please feel free to contribute to this project - either by opening an issue or a pull request.

License

The project is licensed under the MIT license.