FieldEffectCrc
This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see FieldEffectCrc.
Tumor, tumor-adjacent normal, and healthy colorectal transcriptomes as SummarizedExperiment objects
Bioconductor version: 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("FieldEffectCrc")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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 | ||
| NEWS | Text |
Details
| biocViews | ColonCancerData, ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData, ReproducibleResearch, SequencingData, Tissue |
| Version | 1.0.0 |
| License | Artistic-2.0 |
| Depends | utils |
| Imports | BiocStyle, RUnit, SummarizedExperiment, ExperimentHub(>= 0.99.6), AnnotationHub, DESeq2 |
| System Requirements | |
| URL | http://bioconductor.org/packages/release/bioc/html/FieldEffectCrc.html |
| Bug Reports | https://github.com/Bioconductor/FieldEffectCrc/ |
See More
| Suggests | knitr, rmarkdown, BiocGenerics, sva, BiocManager |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | FieldEffectCrc_1.0.0.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 |