DOI: 10.18129/B9.bioc.BrainSABER  

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.16 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see BrainSABER.

Brain Span Atlas in Biobase Expressionset R toolset

Bioconductor version: 3.16

The Allen Institute for Brain Science provides an RNA sequencing (RNA-Seq) data resource for studying transcriptional mechanisms involved in human brain development known as BrainSpan. BrainSABER is an R package that facilitates comparison of user data with the various developmental stages and brain structures found in the BrainSpan atlas by generating dynamic similarity heatmaps for the two data sets. It also provides a self-validating container for user data.

Author: Carrie Minette [aut], Evgeni Radichev [aut], USD Biomedical Engineering [aut, cre]

Maintainer: USD Biomedical Engineering <bicbioeng at>

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


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biocViews GeneExpression, Sequencing, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 3.12 (R-4.0) (2.5 years)
License Artistic-2.0
Depends R (>= 4.1.0), biomaRt, SummarizedExperiment
Imports data.table, lsa, methods, S4Vectors, utils, BiocFileCache, shiny
Suggests BiocStyle, ComplexHeatmap, fastcluster, heatmaply, knitr, plotly, rmarkdown
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