MinimumDistance

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see MinimumDistance.

A Package for De Novo CNV Detection in Case-Parent Trios

Bioconductor version: 3.13

Analysis of de novo copy number variants in trios from high-dimensional genotyping platforms.

Author: Robert B Scharpf and Ingo Ruczinski

Maintainer: Robert Scharpf <rscharpf at jhu.edu>

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

To install this package, start R (version "4.1") and enter:


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

For older versions of R, please refer to the appropriate Bioconductor release.

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("MinimumDistance")

Detection of de novo copy number alterations in case-parent trios PDF R Script

Reference Manual PDF

NEWS Text

Version 1.36.0

In Bioconductor since BioC 2.10 (R-2.15) (12 years)

License Artistic-2.0

Depends R (>= 3.5.0), VanillaICE(>= 1.47.1)

Imports methods, BiocGenerics, MatrixGenerics, Biobase, S4Vectors(>= 0.23.18), IRanges, GenomeInfoDb, GenomicRanges(>= 1.17.16), SummarizedExperiment(>= 1.15.4), oligoClasses, DNAcopy, ff, foreach, matrixStats, lattice, data.table, grid, stats, utils

System Requirements

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Enhances snow, doSNOW

Depends On Me

Imports Me

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

Windows Binary MinimumDistance_1.36.0.zip (32- & 64-bit)

macOS 10.13 (High Sierra) MinimumDistance_1.36.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/MinimumDistance

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MinimumDistance

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Old Source Packages for BioC 3.13 Source Archive