ADAPTS: Automated Deconvolution Augmentation of Profiles for Tissue Specific Cells

Augments existing or de-novo cell-type signature matrices to deconvolve bulk gene expression data. This package expands on the techniques outlined in Newman AM, Liu CL, Green MR, Gentles AJ, Feng W, Xu Y, Hoang CD, Diehn M, Alizadeh, AA (2015) <doi:10.1038/nmeth.3337>'s Nature Methods paper: 'Robust enumeration of cell subsets from tissue expression profiles' to allow a user to easily add their own cell types (e.g. a tumor specific cell type) to Newman's LM22 or other signature matrix.

Version: 0.9.14
Depends: R (≥ 3.3.0)
Imports: missForest, e1071, WGCNA, ComICS, pheatmap, doParallel, quantmod, preprocessCore, pcaMethods, foreach, DeconRNASeq
Suggests: R.rsp
Published: 2019-05-17
Author: Samuel A Danziger
Maintainer: Samuel A Danziger <sam.danziger at gmail.com>
License: MIT + file LICENSE
Copyright: Celgene Corporation
NeedsCompilation: no
Materials: README
CRAN checks: ADAPTS results

Downloads:

Reference manual: ADAPTS.pdf
Vignettes: R packages: Static PDF and HTML vignettes
Package source: ADAPTS_0.9.14.tar.gz
Windows binaries: r-devel: ADAPTS_0.9.14.zip, r-release: ADAPTS_0.9.14.zip, r-oldrel: ADAPTS_0.9.14.zip
OS X binaries: r-release: not available, r-oldrel: not available

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