CAMTHC

DOI: 10.18129/B9.bioc.CAMTHC    

This is the development version of CAMTHC; to use it, please install the devel version of Bioconductor.

Convex Analysis of Mixtures for Tissue Heterogeneity Characterization

Bioconductor version: Development (3.8)

An R package for tissue heterogeneity characterization by convex analysis of mixtures (CAM). It provides basic functions to perform unsupervised deconvolution on mixture expression profiles by CAM and some auxiliary functions to help understand the subpopulation-specific results. It also implements functions to perform supervised deconvolution based on prior knowledge of molecular markers, S matrix or A matrix. Combining molecular markers from CAM and from prior knowledge can achieve semi-supervised deconvolution of mixtures.

Author: Lulu Chen <luluchen at vt.edu>

Maintainer: Lulu Chen <luluchen at vt.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("CAMTHC")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("CAMTHC")

 

HTML R Script CAMTHC User Manual
PDF   Reference Manual
Text   NEWS

Details

biocViews CellBiology, GeneExpression, Software
Version 0.99.6
License GPL-2
Depends R (>= 3.5)
Imports methods, rJava, BiocParallel, stats, Biobase, SummarizedExperiment, corpcor, geometry, NMF, DMwR, pcaPP, apcluster, graphics
LinkingTo
Suggests knitr, rmarkdown, BiocStyle, testthat, GEOquery, rgl
SystemRequirements Java (>= 1.8)
Enhances
URL
BugReports https://github.com/Lululuella/CAMTHC/issues
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package CAMTHC_0.99.6.tar.gz
Windows Binary CAMTHC_0.99.6.zip
Mac OS X 10.11 (El Capitan) CAMTHC_0.99.6.tgz
Source Repository git clone https://git.bioconductor.org/packages/CAMTHC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CAMTHC
Package Short Url http://bioconductor.org/packages/CAMTHC/
Package Downloads Report Download Stats

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