DOI: 10.18129/B9.bioc.TreeSummarizedExperiment  

TreeSummarizedExperiment: a S4 Class for Data with Tree Structures

Bioconductor version: Release (3.17)

TreeSummarizedExperiment has extended SingleCellExperiment to include hierarchical information on the rows or columns of the rectangular data.

Author: Ruizhu Huang [aut, cre] , Felix G.M. Ernst [ctb]

Maintainer: Ruizhu Huang <ruizhuRH at>

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


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HTML R Script 1. Introduction to TreeSE
HTML R Script 2. Combine TSEs
PDF   Reference Manual


biocViews DataRepresentation, Infrastructure, Software
Version 2.8.0
In Bioconductor since BioC 3.9 (R-3.6) (4.5 years)
License GPL (>=2)
Depends R (>= 3.6.0), SingleCellExperiment, S4Vectors(>= 0.23.18), Biostrings
Imports methods, BiocGenerics, utils, ape, rlang, dplyr, SummarizedExperiment, BiocParallel, IRanges, treeio
Suggests ggtree, ggplot2, BiocStyle, knitr, rmarkdown, testthat
Depends On Me curatedMetagenomicData, ExperimentSubset, mia, miaSim, miaViz, MicrobiomeBenchmarkData, microbiomeDataSets
Imports Me ANCOMBC, benchdamic, CBEA, microSTASIS
Suggests Me philr
Links To Me
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