FieldEffectCrc

DOI: 10.18129/B9.bioc.FieldEffectCrc    

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

Tumor, tumor-adjacent normal, and healthy colorectal transcriptomes as SummarizedExperiment objects

Bioconductor version: Development (3.12)

Processed RNA-seq data for 1,139 human primary colorectal tissue samples across three phenotypes, including tumor, normal adjacent-to-tumor, and healthy, available as Synapse ID syn22237139 on synapse.org. Data have been parsed into SummarizedExperiment objects available via ExperimentHub to facilitate reproducibility and extension of results from Dampier et al. (PMCID: PMC7386360, PMID: 32764205).

Author: Christopher Dampier [aut, cre] , Bioconductor Package Maintainer [ctb]

Maintainer: Christopher Dampier <chd5n at virginia.edu>

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

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("FieldEffectCrc")

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("FieldEffectCrc")

 

HTML R Script SummarizedExperiments of colorectal transcriptomes
PDF   Reference Manual
Text   NEWS

Details

biocViews ColonCancerData, ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData, ReproducibleResearch, SequencingData, Tissue
Version 0.99.2
License Artistic-2.0
Depends utils
Imports BiocStyle, RUnit, SummarizedExperiment, ExperimentHub(>= 0.99.6), AnnotationHub, DESeq2
LinkingTo
Suggests knitr, rmarkdown, BiocGenerics, sva, BiocManager
SystemRequirements
Enhances
URL http://bioconductor.org/packages/release/bioc/html/FieldEffectCrc.html
BugReports https://github.com/Bioconductor/FieldEffectCrc/
Depends On Me
Imports Me
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Build Report  

Package Archives

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

Source Package FieldEffectCrc_0.99.2.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/FieldEffectCrc
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/FieldEffectCrc
Package Short Url https://bioconductor.org/packages/FieldEffectCrc/
Package Downloads Report Download Stats

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