This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

calm

This is the development version of calm; for the stable release version, see calm.

Covariate Assisted Large-scale Multiple testing

Bioconductor version: Development (3.18)

Statistical methods for multiple testing with covariate information. Traditional multiple testing methods only consider a list of test statistics, such as p-values. Our methods incorporate the auxiliary information, such as the lengths of gene coding regions or the minor allele frequencies of SNPs, to improve power.

Author: Kun Liang [aut, cre]

Maintainer: Kun Liang <kun.liang at uwaterloo.ca>

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

Installation

To install this package, start R (version "4.3") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("calm")

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("calm")
Userguide for calm package HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Bayesian, DifferentialExpression, GeneExpression, Genetics, ImmunoOncology, Metabolomics, Microarray, MultipleComparison, Proteomics, RNASeq, Regression, Sequencing, Software, Transcriptomics
Version 1.15.0
In Bioconductor since BioC 3.10 (R-3.6) (4 years)
License GPL (>=2)
Depends
Imports mgcv, stats, graphics
Linking To
Suggests knitr, rmarkdown
System Requirements
Enhances
URL
Bug Reports https://github.com/k22liang/calm/issues
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package calm_1.15.0.tar.gz
Windows Binary calm_1.15.0.zip
macOS Binary (x86_64) calm_1.15.0.tgz
macOS Binary (arm64) calm_1.15.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/calm
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/calm
Bioc Package Browser https://code.bioconductor.org/browse/calm/
Package Short Url https://bioconductor.org/packages/calm/
Package Downloads Report Download Stats