mapscape
This is the development version of mapscape; for the stable release version, see mapscape.
All Bioconductor versions of mapscape
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5
mapscape
Bioconductor version: 3.24 · Package version: 1.37.0
MapScape integrates clonal prevalence, clonal hierarchy, anatomic and mutational information to provide interactive visualization of spatial clonal evolution. There are four inputs to MapScape: (i) the clonal phylogeny, (ii) clonal prevalences, (iii) an image reference, which may be a medical image or drawing and (iv) pixel locations for each sample on the referenced image. Optionally, MapScape can accept a data table of mutations for each clone and their variant allele frequencies in each sample. The output of MapScape consists of a cropped anatomical image surrounded by two representations of each tumour sample. The first, a cellular aggregate, visually displays the prevalence of each clone. The second shows a skeleton of the clonal phylogeny while highlighting only those clones present in the sample. Together, these representations enable the analyst to visualize the distribution of clones throughout anatomic space.
Author: Maia Smith [aut, cre]
Maintainer: Maia Smith <maiaannesmith at gmail.com>
Citation
From within R, enter citation("mapscape"):
Maia Smith. mapscape: mapscape. doi:10.18129/B9.bioc.mapscape, R package version 1.37.0, https://bioconductor.org/packages/mapscape.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("mapscape")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.37.0 |
| License | GPL-3 |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.5 (R-3.4) (9 years) |
| Downloads rank | 1709 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/mapscape/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("mapscape")| MapScape vignette | HTML | R Script |
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | mapscape_1.37.0.tar.gz |
| Windows binary (x86_64) | mapscape_1.37.0.zip |
| macOS binary (arm64) | mapscape_1.37.0.tgz |
| macOS binary (x86_64) | mapscape_1.37.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/mapscape |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/mapscape |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.3)
Imports: htmlwidgets (>= 0.5), jsonlite (>= 0.9.19), base64enc (>= 0.1-3), stringr (>= 1.0.0)