To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ExiMiR")
In most cases, you don't need to download the package archive at all.
ExiMiR
R functions for the normalization of Exiqon miRNA array data
Bioconductor version: 3.0
This package contains functions for reading raw data in ImaGene TXT format obtained from Exiqon miRCURY LNA arrays, annotating them with appropriate GAL files, and normalizing them using a spike-in probe-based method. Other platforms and data formats are also supported.
Author: Sylvain Gubian <DL.RSupport at pmi.com>, Alain Sewer <DL.RSupport at pmi.com>, PMP SA
Maintainer: Sylvain Gubian <DL.RSupport at pmi.com>
Citation (from within R,
enter citation("ExiMiR")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ExiMiR")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ExiMiR")
| R Script | Description of ExiMiR | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | GeneExpression, Microarray, OneChannel, Preprocessing, Software, Transcription, TwoChannel |
| Version | 2.8.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) |
| License | GPL-2 |
| Depends | R (>= 2.10), Biobase(>= 2.5.5), affy(>= 1.26.1), limma |
| Imports | affyio(>= 1.13.3), Biobase(>= 2.5.5), preprocessCore(>= 1.10.0) |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ExiMiR_2.8.0.tar.gz |
| Windows Binary | ExiMiR_2.8.0.zip |
| Mac OS X 10.6 (Snow Leopard) | ExiMiR_2.8.0.tgz |
| Mac OS X 10.9 (Mavericks) | ExiMiR_2.8.0.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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