crlmm
This is the development version of crlmm; for the stable release version, see crlmm.
Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays
Bioconductor version: Development (3.19)
Faster implementation of CRLMM specific to SNP 5.0 and 6.0 arrays, as well as a copy number tool specific to 5.0, 6.0, and Illumina platforms.
Author: Benilton S Carvalho, Robert Scharpf, Matt Ritchie, Ingo Ruczinski, Rafael A Irizarry
Maintainer: Benilton S Carvalho <benilton at unicamp.br>, Robert Scharpf <rscharpf at jhsph.edu>, Matt Ritchie <mritchie at wehi.EDU.AU>
citation("crlmm")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("crlmm")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | CopyNumberVariation, Microarray, Preprocessing, SNP, Software |
| Version | 1.61.0 |
| In Bioconductor since | BioC 2.4 (R-2.9) (15 years) |
| License | Artistic-2.0 |
| Depends | R (>= 2.14.0), oligoClasses(>= 1.21.12), preprocessCore(>= 1.17.7) |
| Imports | methods, Biobase(>= 2.15.4), BiocGenerics, affyio(>= 1.23.2), illuminaio, ellipse, mvtnorm, splines, stats, utils, lattice, ff, foreach, RcppEigen (>= 0.3.1.2.1), matrixStats, VGAM, parallel, graphics, limma, beanplot |
| System Requirements | |
| URL |
See More
| Suggests | hapmapsnp6, genomewidesnp6Crlmm(>= 1.0.7), snpStats, RUnit |
| Linking To | preprocessCore(>= 1.17.7) |
| Enhances | |
| Depends On Me | MAGAR |
| Imports Me | VanillaICE |
| Suggests Me | hapmap370k, oligoClasses |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/crlmm |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/crlmm |
| Package Short Url | https://bioconductor.org/packages/crlmm/ |
| Package Downloads Report | Download Stats |