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DeMixT
This is thedevelopment version of DeMixT; for the stable release version, seeDeMixT.
Cell type-specific deconvolution of heterogeneous tumor samples with two or three components using expression data from RNAseq or microarray platforms
Bioconductor version: Development (3.23)
DeMixT is a software package that performs deconvolution on transcriptome data from a mixture of two or three components.
Author: Zeya Wang <zw17.rice at gmail.com>, Shaolong Cao<scao at mdanderson.org>, Wenyi Wang <wwang7 at at mdanderson.org>
Maintainer: Ruonan Li <RLi10 at mdanderson.org>
Citation (from within R, enter
citation("DeMixT")):Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")# The following initializes usage of Bioc develBiocManager::install(version='devel')BiocManager::install("DeMixT")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DeMixT")| DeMixT.Rmd | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Classification,Coverage,GeneExpression,Microarray,Sequencing,Software,StatisticalMethod,TissueMicroarray |
| Version | 1.27.0 |
| In Bioconductor since | BioC 3.9 (R-3.6) (6.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.6.0), parallel,Rcpp (>= 1.0.0),SummarizedExperiment,knitr,KernSmooth,matrixcalc,rmarkdown,DSS,dendextend,psych,sva |
| Imports | matrixStats, stats,truncdist,base64enc,ggplot2 |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | DeMixT_1.27.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | DeMixT_1.27.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/DeMixT |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DeMixT |
| Bioc Package Browser | https://code.bioconductor.org/browse/DeMixT/ |
| Package Short Url | https://bioconductor.org/packages/DeMixT/ |
| Package Downloads Report | Download Stats |