MyNixOS website logo
Description

Visualise Clusterings at Different Resolutions.

Deciding what resolution to use can be a difficult question when approaching a clustering analysis. One way to approach this problem is to look at how samples move as the number of clusters increases. This package allows you to produce clustering trees, a visualisation for interrogating clusterings as resolution increases.

clustree

Project Status Lifecycle: stable R-CMD-check [Coverage Status]https://app.codecov.io/github/lazappi/clustree?branch=master) CodeFactor CRAN Status CRAN Monthly Downloads CRAN Downloads

Deciding what resolution to use can be a difficult question when approaching a clustering analysis. One way to approach this problem is to look at how samples move as the number of clusters increases. This package allows you to produce clustering trees, a visualisation for interrogating clusterings as resolution increases.

Installation

You can install the release version of clustree from CRAN with:

install.packages("clustree")

If you want to use the development version that can be installed from GitHub using the remotes package:

# install.packages("remotes")
remotes::install_github("lazappi/clustree@develop")

To also build the vignettes use:

# install.packages("remotes")
remotes::install_github("lazappi/clustree@develop", dependencies = TRUE,
                         build_vignettes = TRUE)

NOTE: Building the vignettes requires the installation of additional packages.

Documentation

The documentation for clustree is available from CRAN at https://cran.r-project.org/package=clustree.

To view the vignette and all the package documentation for the development version visit http://lazappi.github.io/clustree.

Citing clustree

If you use clustree or the clustering trees approach in your work please cite our publication "Zappia L, Oshlack A. Clustering trees: a visualization for evaluating clusterings at multiple resolutions. Gigascience. 2018;7. DOI:gigascience/giy083.

citation("clustree")
 
   Zappia L, Oshlack A. Clustering trees: a visualization for
   evaluating clusterings at multiple resolutions. GigaScience.
   2018;7. DOI:gigascience/giy083
 
A BibTeX entry for LaTeX users is
 
   @Article{,
     author = {Luke Zappia and Alicia Oshlack},
     title = {Clustering trees: a visualization for evaluating clusterings at
              multiple resolutions},
     journal = {GigaScience},
     volume = {7},
     number = {7},
     month = {jul},
     year = {2018},
     url = {http://dx.doi.org/10.1093/gigascience/giy083},
     doi = {10.1093/gigascience/giy083},
   }

Contributors

Thank you to everyone who has contributed code to the clustree package:

Metadata

Version

0.5.1

License

Unknown

Platforms (75)

    Darwin
    FreeBSD
    Genode
    GHCJS
    Linux
    MMIXware
    NetBSD
    none
    OpenBSD
    Redox
    Solaris
    WASI
    Windows
Show all
  • aarch64-darwin
  • aarch64-genode
  • aarch64-linux
  • aarch64-netbsd
  • aarch64-none
  • aarch64_be-none
  • arm-none
  • armv5tel-linux
  • armv6l-linux
  • armv6l-netbsd
  • armv6l-none
  • armv7a-darwin
  • armv7a-linux
  • armv7a-netbsd
  • armv7l-linux
  • armv7l-netbsd
  • avr-none
  • i686-cygwin
  • i686-darwin
  • i686-freebsd
  • i686-genode
  • i686-linux
  • i686-netbsd
  • i686-none
  • i686-openbsd
  • i686-windows
  • javascript-ghcjs
  • loongarch64-linux
  • m68k-linux
  • m68k-netbsd
  • m68k-none
  • microblaze-linux
  • microblaze-none
  • microblazeel-linux
  • microblazeel-none
  • mips-linux
  • mips-none
  • mips64-linux
  • mips64-none
  • mips64el-linux
  • mipsel-linux
  • mipsel-netbsd
  • mmix-mmixware
  • msp430-none
  • or1k-none
  • powerpc-netbsd
  • powerpc-none
  • powerpc64-linux
  • powerpc64le-linux
  • powerpcle-none
  • riscv32-linux
  • riscv32-netbsd
  • riscv32-none
  • riscv64-linux
  • riscv64-netbsd
  • riscv64-none
  • rx-none
  • s390-linux
  • s390-none
  • s390x-linux
  • s390x-none
  • vc4-none
  • wasm32-wasi
  • wasm64-wasi
  • x86_64-cygwin
  • x86_64-darwin
  • x86_64-freebsd
  • x86_64-genode
  • x86_64-linux
  • x86_64-netbsd
  • x86_64-none
  • x86_64-openbsd
  • x86_64-redox
  • x86_64-solaris
  • x86_64-windows