The goal of the hancock package is to provide a collection of methods for learning and applying gene signatures associated with cellular phenotypes and identities. Particular focus is given to single-cell data stored in objects derived from the SummarizedExperiment class.
Prerequisites
The hancock package supports classes of gene sets defined in multiple packages. However, it uses BaseSets classes defined in the unisets package to return newly learned signatures with accompanying metadata. This dependency may be installed as follows:
install.packages("devtools")
devtools::install_github("kevinrue/unisets", build_opts = c("--no-resave-data", "--no-manual"))Several functions support the tbl_geneset class defined in the GeneSet package. This package may be installed as follows:
devtools::install_github("Kayla-Morrell/GeneSet")Installation
The hancock package may be installed as follows:
install.packages("devtools")
devtools::install_github("kevinrue/hancock")To build the vignette as well, please use the following code:
devtools::install_github("kevinrue/hancock", build_opts = c("--no-resave-data", "--no-manual"))Usage
Demonstration notebooks are available as vignettes and on the companion repository: https://github.com/kevinrue/hancock2018
Contributing
Considerate contributions are very welcome! Please refer to the contributing guidelines for more details.
