BrainSABER

DOI: 10.18129/B9.bioc.BrainSABER    

This is the development version of BrainSABER; to use it, please install the devel version of Bioconductor.

Brain Span Atlas in Biobase Expressionset R toolset

Bioconductor version: Development (3.12)

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 and Evgeni Radichev

Maintainer: USD Biomedical Engineering <bicbioeng at gmail.com>

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

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("BrainSABER")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("BrainSABER")

 

HTML R Script BrainSABER
PDF   Reference Manual
Text   NEWS

Details

biocViews GeneExpression, Sequencing, Software, Visualization
Version 0.99.4
In Bioconductor since BioC 3.12 (R-4.0)
License Artistic-2.0
Depends R (>= 4.0), biomaRt, SummarizedExperiment
Imports data.table, lsa, methods, S4Vectors, utils, BiocFileCache
LinkingTo
Suggests BiocStyle, ComplexHeatmap, fastcluster, heatmaply, knitr, plotly
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package BrainSABER_0.99.4.tar.gz
Windows Binary BrainSABER_0.99.4.zip
macOS 10.13 (High Sierra) BrainSABER_0.99.4.tgz
Source Repository git clone https://git.bioconductor.org/packages/BrainSABER
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BrainSABER
Package Short Url https://bioconductor.org/packages/BrainSABER/
Package Downloads Report Download Stats

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