treeclimbR

This is the development version of treeclimbR; for the stable release version, see treeclimbR.

An algorithm to find optimal signal levels in a tree

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DOI: 10.18129/B9.bioc.treeclimbR

Bioconductor version: Development (3.23)

The arrangement of hypotheses in a hierarchical structure appears in many research fields and often indicates different resolutions at which data can be viewed. This raises the question of which resolution level the signal should best be interpreted on. treeclimbR provides a flexible method to select optimal resolution levels (potentially different levels in different parts of the tree), rather than cutting the tree at an arbitrary level. treeclimbR uses a tuning parameter to generate candidate resolutions and from these selects the optimal one.

Author: Ruizhu Huang [aut] ORCID iD ORCID: 0000-0003-3285-1945 , Charlotte Soneson [aut, cre] ORCID iD ORCID: 0000-0003-3833-2169

Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>

Citation (from within R, enter citation("treeclimbR")):

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("treeclimbR")

For older versions of R, please refer to the appropriate Bioconductor release.