Other packages > Find by keyword >

calmate  

Improved Allele-Specific Copy Number of SNP Microarrays for Downstream Segmentation
View on CRAN: Click here


Download and install calmate package within the R console
Install from CRAN:
install.packages("calmate")

Install from Github:
library("remotes")
install_github("cran/calmate")

Install by package version:
library("remotes")
install_version("calmate", "0.13.0")



Attach the package and use:
library("calmate")
Maintained by
Henrik Bengtsson
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2011-09-16
Latest Update: 2022-03-08
Description:
The CalMaTe method calibrates preprocessed allele-specific copy number estimates (ASCNs) from DNA microarrays by controlling for single-nucleotide polymorphism-specific allelic crosstalk. The resulting ASCNs are on average more accurate, which increases the power of segmentation methods for detecting changes between copy number states in tumor studies including copy neutral loss of heterozygosity. CalMaTe applies to any ASCNs regardless of preprocessing method and microarray technology, e.g. Affymetrix and Illumina.
How to cite:
Henrik Bengtsson (2011). calmate: Improved Allele-Specific Copy Number of SNP Microarrays for Downstream Segmentation. R package version 0.13.0, https://cran.r-project.org/web/packages/calmate. Accessed 06 Mar. 2026.
Previous versions and publish date:
0.6.6 (2011-09-16 19:43), 0.7.0 (2011-10-25 09:47), 0.9.2 (2012-03-19 12:12), 0.10.0 (2013-01-08 08:30), 0.10.2 (2013-08-04 17:19), 0.11.0 (2013-10-17 12:37), 0.12.0 (2015-02-23 23:12), 0.12.1 (2015-10-27 08:09)
Other packages that cited calmate R package
View calmate citation profile
Other R packages that calmate depends, imports, suggests or enhances
Complete documentation for calmate
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

openxlsx  
Read, Write and Edit xlsx Files
Simplifies the creation of Excel .xlsx files by providing a high level interface to writing, stylin ...
Download / Learn more Package Citations See dependency  
DatabionicSwarm  
Swarm Intelligence for Self-Organized Clustering
Algorithms implementing populations of agents that interact with one another and sense their environ ...
Download / Learn more Package Citations See dependency  
mlr3viz  
Visualizations for 'mlr3'
Visualization package of the 'mlr3' ecosystem. It features plots for mlr3 objects such as tasks, le ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  
EMVS  
The Expectation-Maximization Approach to Bayesian Variable Selection
An efficient expectation-maximization algorithm for fitting Bayesian spike-and-slab regularization p ...
Download / Learn more Package Citations See dependency  
lbfgs  
Limited-memory BFGS Optimization
A wrapper built around the libLBFGS optimization library by Naoaki Okazaki. The lbfgs package implem ...
Download / Learn more Package Citations See dependency  

26,264

R Packages

223,360

Dependencies

70,376

Author Associations

26,265

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA