HistoImagePlot
Plotting functionality for Histopathology pipeline datasets
Bioconductor version: 3.24 · Package version: 1.1.2
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Create side-by-side visualizations of tissue thumbnail image and HoverNet cell segmentation with colored cell type labels. Functionality automatically retrieves the thumbnail image associated with a HoverNet JSON file and overlays the segmentation data. This package is intended for researchers working with histopathological images, facilitating exploratory analysis, and integrates with the imageFeatureTCGA Bioconductor package.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HistoImagePlot")Details
| Maintainer | Ilaria Billato <ilaria.billato@phd.unipd.it> |
| Author | Ilaria Billato [aut, cre] (ORCID: <https://orcid.org/0000-0002-3335-3254>, affiliation: Department of Biology, University of Padova) |
| License | Artistic-2.0 |
| URL | https://github.com/waldronlab/HistoImagePlot |
| Bug Reports | https://github.com/waldronlab/HistoImagePlot/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Software, Spatial, Visualization |
| Package Short Url | https://bioconductor.org/packages/HistoImagePlot/ |
Citation
From within R, enter citation("HistoImagePlot"):
Ilaria Billato. HistoImagePlot: Plotting functionality for Histopathology pipeline datasets. doi:10.18129/B9.bioc.HistoImagePlot, R package version 1.1.2, https://bioconductor.org/packages/HistoImagePlot.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | HistoImagePlot_1.1.2.tar.gz |
| Windows binary (x86_64) | HistoImagePlot_1.1.2.zip |
| macOS binary (arm64) | HistoImagePlot_1.1.2.tgz |
| macOS binary (x86_64) | HistoImagePlot_1.1.2.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: BiocBaseUtils, cowplot, ggplot2, grDevices, imageFeatureTCGA, methods, RColorBrewer, S4Vectors, SpatialExperiment, SummarizedExperiment
Suggests: anndataR, BiocStyle, dplyr, knitr, magick, rmarkdown, tinytest