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ggspavis's Introduction

ggspavis

R build status

The ggspavis package contains visualization functions for spatially resolved transcriptomics data stored in SpatialExperiment R/Bioconductor format.

The ggspavis package is available from Bioconductor.

A vignette containing examples and documentation is available from Bioconductor.

Installation

The ggspavis package can be installed from Bioconductor. Note that Bioconductor follows a "release" and "development" schedule, where the release version is considered to be stable and updated every 6 months, and the development version contains latest updates (and then becomes the next release version every 6 months).

Release version

To install the stable release version, install the latest release version of R from CRAN, then install the Bioconductor package installer and the ggspavis package:

install.packages("BiocManager")
BiocManager::install("ggspavis")

Development version

The development version can be installed from GitHub:

install.packages("remotes")
remotes::install_github("lmweber/ggspavis", build_vignettes = TRUE)

Citation

Righell D.*, Weber L.M.*, Crowell H.L.*, Pardo B., Collado-Torres L., Ghazanfar S., Lun A.T.L., Hicks S.C.+, and Risso D.+ (2021), SpatialExperiment: infrastructure for spatially resolved transcriptomics data in R using Bioconductor, bioRxiv.

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