MinimumDistance

This is the released version of MinimumDistance; for the devel version, see MinimumDistance.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10

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

Bioconductor version: Release (3.23)

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")):

Robert B Scharpf and Ingo Ruczinski. MinimumDistance: A Package for De Novo CNV Detection in Case-Parent Trios. doi:10.18129/B9.bioc.MinimumDistance, R package version 1.56.0, https://bioconductor.org/packages/MinimumDistance.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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.

Documentation

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CopyNumberVariation, Microarray, SNP, Software
Version	1.56.0
In Bioconductor since	BioC 2.10 (R-2.15) (14.5 years)
License	Artistic-2.0
Depends	R (>= 3.5.0), VanillaICE (>= 1.47.1)
Imports	methods, BiocGenerics, MatrixGenerics, Biobase, S4Vectors (>= 0.23.18), IRanges, Seqinfo, GenomicRanges (>= 1.17.16), SummarizedExperiment (>= 1.15.4), oligoClasses, DNAcopy, ff, foreach, matrixStats, lattice, data.table, grid, stats, utils
System Requirements
URL

Suggests	human610quadv1bCrlmm (>= 1.0.3), BSgenome.Hsapiens.UCSC.hg18, BSgenome.Hsapiens.UCSC.hg19, RUnit
Linking To
Enhances	snow, doSNOW
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	MinimumDistance_1.56.0.tar.gz
Windows Binary (x86_64)	MinimumDistance_1.56.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	MinimumDistance_1.56.0.tgz
macOS Binary (sonoma-arm64)	MinimumDistance_1.56.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/MinimumDistance
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/MinimumDistance
Package Short Url	https://bioconductor.org/packages/MinimumDistance/
Package Downloads Report	Download Stats