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IHWpaper

Reproduce figures in IHW paper

Bioconductor version: 3.23 · Package version: 1.40.0

This package conveniently wraps all functions needed to reproduce the figures in the IHW paper (https://www.nature.com/articles/nmeth.3885) and the data analysis in https://rss.onlinelibrary.wiley.com/doi/10.1111/rssb.12411, cf. the arXiv preprint (http://arxiv.org/abs/1701.05179). Thus it is a companion package to the Bioconductor IHW package.

Installation

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

BiocManager::install("IHWpaper")

Details

MaintainerNikos Ignatiadis <nikos.ignatiadis01@gmail.com>
AuthorNikos Ignatiadis [aut, cre]
LicenseArtistic-2.0
Downloads rank194
Source branchRELEASE_3_23
biocViewsExperimentData, ExpressionData, RNASeqData, ReproducibleResearch

Download

Follow the installation instructions to use this package in your R session.

Source packageIHWpaper_1.40.0.tar.gz
Dependencies

Depends: R (>= 3.3), IHW

Imports: Rcpp, stats, splines, methods, utils, DESeq2, SummarizedExperiment, fdrtool, genefilter, qvalue, Biobase, BiocGenerics, BiocParallel, dplyr, grid, ggplot2, cowplot

LinkingTo: Rcpp

Suggests: testthat, RColorBrewer, wesanderson, scales, gridExtra, BiocStyle, knitr, rmarkdown, airway, locfdr, tidyr, latex2exp