jellyfisher: Visualize Spatiotemporal Tumor Evolution with Jellyfish Plots

Generates interactive Jellyfish plots to visualize spatiotemporal tumor evolution by integrating sample and phylogenetic trees into a unified plot. This approach provides an intuitive way to analyze tumor heterogeneity and evolution over time and across anatomical locations. The Jellyfish plot visualization design was first introduced by Lahtinen, Lavikka, et al. (2023, <doi:10.1016/j.ccell.2023.04.017>). This package also supports visualizing ClonEvol results, a tool developed by Dang, et al. (2017, <doi:10.1093/annonc/mdx517>), for analyzing clonal evolution from multi-sample sequencing data. The 'clonevol' package is not available on CRAN but can be installed from its GitHub repository (<https://github.com/hdng/clonevol>).

Version: 1.0.4
Depends: R (≥ 4.1.0)
Imports: htmlwidgets, dplyr, stringr
Suggests: knitr, rmarkdown, clonevol
Published: 2025-02-06
DOI: 10.32614/CRAN.package.jellyfisher
Author: Kari Lavikka ORCID iD [cph, aut, cre]
Maintainer: Kari Lavikka <kari.lavikka at helsinki.fi>
BugReports: https://github.com/HautaniemiLab/jellyfisher/issues
License: MIT + file LICENSE
URL: https://github.com/HautaniemiLab/jellyfisher, https://hautaniemilab.github.io/jellyfisher/
NeedsCompilation: no
Materials: README NEWS
CRAN checks: jellyfisher results

Documentation:

Reference manual: jellyfisher.pdf
Vignettes: Introduction to Jellyfisher (source, R code)

Downloads:

Package source: jellyfisher_1.0.4.tar.gz
Windows binaries: r-devel: jellyfisher_1.0.4.zip, r-release: jellyfisher_1.0.4.zip, r-oldrel: jellyfisher_1.0.4.zip
macOS binaries: r-devel (arm64): jellyfisher_1.0.4.tgz, r-release (arm64): jellyfisher_1.0.4.tgz, r-oldrel (arm64): jellyfisher_1.0.4.tgz, r-devel (x86_64): jellyfisher_1.0.4.tgz, r-release (x86_64): jellyfisher_1.0.4.tgz, r-oldrel (x86_64): jellyfisher_1.0.4.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=jellyfisher to link to this page.