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.
Version: 0.13.0 Depends: R (≥ 3.2.1), R.utils (≥ 2.11.0), aroma.core (≥ 3.2.2) Imports: utils, MASS, R.methodsS3 (≥ 1.8.1), R.oo (≥ 1.24.0), matrixStats (≥ 0.61.0), R.filesets (≥ 2.14.0) Suggests: DNAcopy Published: 2022-03-08 DOI: 10.32614/CRAN.package.calmate Author: Maria Ortiz [aut, ctb], Ander Aramburu [ctb], Henrik Bengtsson [aut, cre, cph], Pierre Neuvial [aut, ctb], Angel Rubio [aut, ctb] Maintainer: Henrik Bengtsson <henrikb at braju.com> BugReports: https://github.com/HenrikBengtsson/calmate/issues License: LGPL-2.1 | LGPL-3 [expanded from: LGPL (≥ 2.1)] URL: https://github.com/HenrikBengtsson/calmate/ NeedsCompilation: no Citation: calmate citation info Materials: README NEWS CRAN checks: calmate results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=calmate to link to this page.
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