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jellyfisher  

Visualize Spatiotemporal Tumor Evolution with Jellyfish Plots
View on CRAN: Click here


Download and install jellyfisher package within the R console
Install from CRAN:
install.packages("jellyfisher")

Install from Github:
library("remotes")
install_github("cran/jellyfisher")

Install by package version:
library("remotes")
install_version("jellyfisher", "1.0.4")



Attach the package and use:
library("jellyfisher")
Maintained by
Kari Lavikka
[Scholar Profile | Author Map]
First Published: 2025-02-06
Latest Update: 2025-02-06
Description:
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>).
How to cite:
Kari Lavikka (2025). jellyfisher: Visualize Spatiotemporal Tumor Evolution with Jellyfish Plots. R package version 1.0.4, https://cran.r-project.org/web/packages/jellyfisher. Accessed 05 Apr. 2025.
Previous versions and publish date:
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Complete documentation for jellyfisher
Functions, R codes and Examples using the jellyfisher R package
Full jellyfisher package functions and examples
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