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calmate
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]
[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 25 Jun. 2026.
Previous versions and publish date:
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Other R packages that calmate depends,
imports, suggests or enhances
Complete documentation for calmate
Functions, R codes and Examples using
the calmate R package
Some associated functions: CalMaTeCalibration . Non-documented_objects . calmate-package . calmateByThetaAB.array . calmateByTotalAndFracB.array . fitCalMaTe.matrix . fitCalMaTeCNprobes.matrix . fitCalMaTeInternal . thetaAB2TotalAndFracB.array .
Some associated R codes: 000.R . 999.NonDocumentedObjects.R . 999.package.R . CalMaTeCalibration.R . calmateByThetaAB.R . calmateByTotalAndFracB.R . fitCalMaTe.R . fitCalMaTeCNprobes.R . fitCalMaTeInternal.R . fitCalMaTeMedians.R . fitCalMaTeV1.R . fitCalMaTeV2.R . thetaAB2TotalAndFracB.R . truncateFracB.R . truncateThetaAB.R . utils.R . zzz.R . Full calmate package functions and examples
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