BloodCancerMultiOmics2017

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see BloodCancerMultiOmics2017.

"Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al. - experimental data and complete analysis

DOI: 10.18129/B9.bioc.BloodCancerMultiOmics2017

Bioconductor version: 3.19

The package contains data of the Primary Blood Cancer Encyclopedia (PACE) project together with a complete executable transcript of the statistical analysis and reproduces figures presented in the paper "Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al., J. Clin. Invest. (2018) 128(1):427-445. doi:10.1172/JCI93801.

Author: Malgorzata Oles, Sascha Dietrich, Junyan Lu, Britta Velten, Andreas Mock, Vladislav Kim, Wolfgang Huber

Maintainer: Malgorzata Oles <dr.malgorzata.oles at gmail.com>

Citation (from within R, enter citation("BloodCancerMultiOmics2017")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("BloodCancerMultiOmics2017")

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("BloodCancerMultiOmics2017")

BloodCancerMultiOmics2017 HTML R Script

BloodCancerMultiOmics2017 - data overview HTML R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CancerData, ExperimentData, LeukemiaCancerData, ReproducibleResearch

Version 1.24.0

License LGPL (>= 3)

Depends R (>= 3.5.0)

Imports beeswarm, Biobase, DESeq2, devtools, dplyr, ggdendro, ggplot2, glmnet, graphics, grDevices, grid, gtable, ipflasso, methods, RColorBrewer, reshape2, scales, stats, SummarizedExperiment, survival, tibble

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Suggests BiocStyle, knitr, rmarkdown, abind, AnnotationDbi, biomaRt, broom, colorspace, cowplot, dendsort, doParallel, foreach, forestplot, genefilter, ggbeeswarm, ggtern, gridExtra, hexbin, IHW, limma, magrittr, Matrix, maxstat, nat, org.Hs.eg.db, pheatmap, piano, readxl, Rtsne, tidyr, xtable

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

Source Package BloodCancerMultiOmics2017_1.24.0.tar.gz

Windows Binary (x86_64)

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Source Repository git clone https://git.bioconductor.org/packages/BloodCancerMultiOmics2017

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BloodCancerMultiOmics2017

Package Short Url https://bioconductor.org/packages/BloodCancerMultiOmics2017/

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