This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

FieldEffectCrc

This is the development version of FieldEffectCrc; for the stable release version, see FieldEffectCrc.

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

Bioconductor version: Development (3.18)

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 "4.3") and enter: 

if (!require("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")
SummarizedExperiments of colorectal transcriptomes HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews ColonCancerData, ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData, ReproducibleResearch, SequencingData, Tissue
Version 1.11.0
License Artistic-2.0
Depends utils
Imports BiocStyle, RUnit, SummarizedExperiment, ExperimentHub(>= 0.99.6), AnnotationHub, DESeq2
Linking To
Suggests knitr, rmarkdown, BiocGenerics, sva, BiocManager
System Requirements
Enhances
URL http://bioconductor.org/packages/release/bioc/html/FieldEffectCrc.html
Bug Reports https://github.com/Bioconductor/FieldEffectCrc/
See More
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 FieldEffectCrc_1.11.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
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