Name Mode Size
.github 040000
R 040000
inst 040000
man 040000
tests 040000
vignettes 040000
.Rbuildignore 100644 0 kb
.gitignore 100644 0 kb
DESCRIPTION 100644 1 kb
LICENSE 100644 1 kb
NAMESPACE 100644 1 kb
README.md 100644 2 kb
README.md
# Save `SummarizedExperiment`s to file |Environment|Status| |---|---| |[BioC-release](https://bioconductor.org/packages/release/bioc/html/alabaster.se.html)|[![Release OK](https://bioconductor.org/shields/build/release/bioc/alabaster.se.svg)](http://bioconductor.org/checkResults/release/bioc-LATEST/alabaster.se/)| |[BioC-devel](https://bioconductor.org/packages/devel/bioc/html/alabaster.se.html)|[![Devel OK](https://bioconductor.org/shields/build/devel/bioc/alabaster.se.svg)](http://bioconductor.org/checkResults/devel/bioc-LATEST/alabaster.se/)| The **alabaster.se** package implements methods for saving and loading `SummarizedExperiment` objects under the **alabaster** framework. It provides a language-agnostic method for serializing experimental data and annotations in these objects, including the genomic coordinates in a `RangedSummarizedExperiment`. To get started, install the package and its dependencies from Bioconductor: ```r # install.packages("BiocManager") BiocManager::install("alabaster.se") ``` In the example below, we save a `RangedSummarizedExperiment` object to file: ```r library(SummarizedExperiment) example(SummarizedExperiment, echo=FALSE) # can't be bothered to copy it here. rse ## class: RangedSummarizedExperiment ## dim: 200 6 ## metadata(0): ## assays(1): counts ## rownames: NULL ## rowData names(1): feature_id ## colnames(6): A B ... E F ## colData names(1): Treatment library(alabaster.se) tmp <- tempfile() saveObject(rse, tmp) roundtrip <- readObject(tmp) class(roundtrip) ## [1] "RangedSummarizedExperiment" ## attr(,"package") ## [1] "SummarizedExperiment" ```