To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("marray")
In most cases, you don't need to download the package archive at all.
marray
Exploratory analysis for two-color spotted microarray data
Bioconductor version: 3.0
Class definitions for two-color spotted microarray data. Fuctions for data input, diagnostic plots, normalization and quality checking.
Author: Yee Hwa (Jean) Yang <jeany at maths.usyd.edu.au> with contributions from Agnes Paquet and Sandrine Dudoit.
Maintainer: Yee Hwa (Jean) Yang <jean at biostat.ucsf.edu>
Citation (from within R,
enter citation("marray")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("marray")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("marray")
| R Script | marray Normalization | |
| R Script | marray Overview | |
| R Script | marrayClasses Overview | |
| R Script | marrayClasses Tutorial (short) | |
| R Script | marrayInput Introduction | |
| R Script | marrayPlots Overview | |
| Reference Manual | ||
| Text | LICENSE |
Details
| biocViews | Microarray, Preprocessing, Software, TwoChannel |
| Version | 1.44.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier |
| License | LGPL |
| Depends | R (>= 2.10.0), limma, methods |
| Imports | |
| LinkingTo | |
| Suggests | tkWidgets |
| SystemRequirements | |
| Enhances | |
| URL | http://www.maths.usyd.edu.au/u/jeany/ |
| Depends On Me | beta7, CGHbase, convert, dyebias, dyebiasexamples, FEM, maigesPack, MineICA, nnNorm, OLIN, stepNorm, TurboNorm |
| Imports Me | arrayQuality, ChAMP, methylPipe, MSstats, nnNorm, OLIN, OLINgui, piano, plrs, sigaR, stepNorm, timecourse |
| Suggests Me | AgiMicroRna, DEGraph, Mfuzz |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | marray_1.44.0.tar.gz |
| Windows Binary | marray_1.44.0.zip |
| Mac OS X 10.6 (Snow Leopard) | marray_1.44.0.tgz |
| Mac OS X 10.9 (Mavericks) | marray_1.44.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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