snm
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see snm.
Supervised Normalization of Microarrays
Bioconductor version: 3.9
SNM is a modeling strategy especially designed for normalizing high-throughput genomic data. The underlying premise of our approach is that your data is a function of what we refer to as study-specific variables. These variables are either biological variables that represent the target of the statistical analysis, or adjustment variables that represent factors arising from the experimental or biological setting the data is drawn from. The SNM approach aims to simultaneously model all study-specific variables in order to more accurately characterize the biological or clinical variables of interest.
Author: Brig Mecham and John D. Storey <jstorey at princeton.edu>
Maintainer: John D. Storey <jstorey at princeton.edu>
citation("snm")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("snm")
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("snm")| snm Tutorial | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, ExonArray, GeneExpression, Microarray, MultiChannel, MultipleComparison, OneChannel, Preprocessing, QualityControl, Software, Transcription, TwoChannel |
| Version | 1.32.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) (13 years) |
| License | LGPL |
| Depends | R (>= 2.12.0) |
| Imports | corpcor, lme4 (>= 1.0), splines |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | edge, ExpressionNormalizationWorkflow |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | snm_1.32.0.tar.gz |
| Windows Binary | snm_1.32.0.zip |
| Mac OS X 10.11 (El Capitan) | snm_1.32.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/snm |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/snm |
| Bioc Package Browser | https://code.bioconductor.org/browse/snm/ |
| Package Short Url | https://bioconductor.org/packages/snm/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |