Package: alabaster.treese 0.99.0

Tuomas Borman

alabaster.treese: Load and Save TreeSummarizedExperiment from File

Save TreeSummarizedExperiment into file artifacts, and load them back into memory. This is a more portable alternative to serialization of such objects into RDS files. Each artifact is associated with metadata for further interpretation; downstream applications can enrich this metadata with context-specific properties.

Authors:Tuomas Borman [aut, cre], Leo Lahti [aut]

alabaster.treese_0.99.0.tar.gz
alabaster.treese_0.99.0.zip(r-4.7-any)alabaster.treese_0.99.0.zip(r-4.6-any)alabaster.treese_0.99.0.zip(r-4.5-any)
alabaster.treese_0.99.0.tgz(r-4.6-any)
alabaster.treese_0.99.0.tar.gz(r-4.7-any)alabaster.treese_0.99.0.tar.gz(r-4.6-any)
alabaster.treese_0.99.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
alabaster.treese/json (API)

# Install 'alabaster.treese' in R:

install.packages('alabaster.treese', repos = c('https://biocstaging.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/microbiome/alabaster.treese/issues

Pkgdown/docs site:https://microbiome.github.io

On CRAN:

dataimport datarepresentation phylogenetics microbiome

2.70 score 2 exports 78 dependencies

Last updated from:1b91678e3b. Checks:9 OK, 1 FAIL. Indexed: yes.

Target	Result	Time
bioc-checks	OK	174
linux-devel	OK	333
source / vignettes	OK	450
linux-release	OK	300
macos-release	OK	448
macos-oldrel	FAIL	55
windows-devel	OK	290
windows-release	OK	249
windows-oldrel	OK	292
wasm-release	OK	140

Exports:readTreeSummarizedExperiment saveObject

Dependencies:abind alabaster.base alabaster.matrix alabaster.ranges alabaster.sce alabaster.schemas alabaster.se alabaster.string ape assorthead BH Biobase BiocGenerics biocmake BiocParallel Biostrings cli codetools cpp11 crayon curl DelayedArray digest dir.expiry dplyr filelock formatR fs futile.logger futile.options generics GenomicRanges glue h5mread HDF5Array IRanges jsonlite jsonvalidate lambda.r lattice lazyeval lifecycle magrittr Matrix MatrixGenerics matrixStats nlme pillar pkgconfig purrr R6 rappdirs Rcpp rhdf5 rhdf5filters Rhdf5lib rlang S4Arrays S4Vectors Seqinfo SingleCellExperiment snow SparseArray stringi stringr SummarizedExperiment tibble tidyr tidyselect tidytree treeio TreeSummarizedExperiment utf8 V8 vctrs withr XVector yulab.utils

Saving TreeSummarizedExperiments to artifacts and back again

Overview | Quick start | On-disk representation | Session information

Rendered fromuserguide.Rmdusingknitr::rmarkdown

Last update: 2026-10-29
Started: 2026-10-29

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Read a TreeSummarizedExperiment from disk	readTreeSummarizedExperiment
Save a TreeSummarizedExperiment to disk	saveObject,TreeSummarizedExperiment-method saveTreeSummarizedExperiment