Fletcher2013b

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 3.23 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see Fletcher2013b.

Master regulators of FGFR2 signalling and breast cancer risk

Bioconductor version: Release (3.23)

This package reproduces the systems biology analysis for the data in package Fletcher2013a using RTN.

Author: Mauro Castro, Michael Fletcher, Florian Markowetz and Kerstin Meyer.

Maintainer: Mauro Castro <mauro.a.castro at gmail.com>

Citation (from within R, enter citation("Fletcher2013b")):

Seminal Bioconductor project articles:

Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.

Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.

Installation

To install this package, start R (version "4.6") and enter:


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

BiocManager::install("Fletcher2013b")

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("Fletcher2013b")

Main vignette:Fletcher2013b	PDF	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	BreastCancerData, CancerData, ChIPSeqData, ExperimentData, SNPData
Version	1.48.0
License	GPL (>= 2)
Depends	R (>= 2.15), Fletcher2013a, RTN(>= 1.1.2), RedeR(>= 1.8.1), igraph
Imports	RColorBrewer
System Requirements
URL	http://dx.doi.org/10.1038/ncomms3464

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Linking To
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Depends On Me
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Suggests Me	geneplast
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Build Report	Build Report

Package Archives

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

Source Package	Fletcher2013b_1.48.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/Fletcher2013b
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Fletcher2013b
Package Short Url	https://bioconductor.org/packages/Fletcher2013b/
Package Downloads Report	Download Stats