This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see spatialHeatmap.
Bioconductor version: 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")
):
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.
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 |
Reference Manual | ||
Text | NEWS |
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) (0.5 years) |
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 |
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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