spatialHeatmap

DOI: 10.18129/B9.bioc.spatialHeatmap    

spatialHeatmap

Bioconductor version: Release (3.12)

The spatialHeatmap package provides functionalities for visualizing cell-, tissue- and organ-specific data of biological assays by coloring the corresponding spatial features defined in anatomical images according to a numeric color key.

Author: Jianhai Zhang [aut, trl, cre], Jordan Hayes [aut], Le Zhang [aut], Bing Yang [aut], Wolf Frommer [aut], Julia Bailey-Serres [aut], Thomas Girke [aut]

Maintainer: Jianhai Zhang <jzhan067 at ucr.edu>

Citation (from within R, enter citation("spatialHeatmap")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("spatialHeatmap")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("spatialHeatmap")

 

HTML R Script spatialHeatmap: Visualizing Spatial Assays in Anatomical Images and Network Graphs
PDF   Reference Manual
Text   NEWS

Details

biocViews ATACSeq, CellBasedAssays, CellBiology, Clustering, DNASeq, DataRepresentation, GeneExpression, GeneTarget, GraphAndNetwork, Microarray, Network, Sequencing, SingleCell, Software, TissueMicroarray, Visualization
Version 1.0.0
In Bioconductor since BioC 3.12 (R-4.0) (< 6 months)
License Artistic-2.0
Depends
Imports av, DESeq2, edgeR, WGCNA, flashClust, htmlwidgets, genefilter, ggplot2, ggdendro, grImport, grid, gridExtra, gplots, igraph, rsvg, shiny, dynamicTreeCut, grDevices, graphics, ggplotify, plotly, rols, stats, SummarizedExperiment, shinydashboard, utils, visNetwork, methods, xml2, yaml
LinkingTo
Suggests knitr, rmarkdown, BiocStyle, RUnit, BiocGenerics, data.table, ExpressionAtlas, DT, reshape2, Biobase, GEOquery, shinyWidgets
SystemRequirements
Enhances
URL https://github.com/jianhaizhang/spatialHeatmap
BugReports https://github.com/jianhaizhang/spatialHeatmap/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package spatialHeatmap_1.0.0.tar.gz
Windows Binary spatialHeatmap_1.0.0.zip
macOS 10.13 (High Sierra) spatialHeatmap_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/spatialHeatmap
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/spatialHeatmap
Package Short Url https://bioconductor.org/packages/spatialHeatmap/
Package Downloads Report Download Stats

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