To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("farms")
In most cases, you don't need to download the package archive at all.
farms
FARMS - Factor Analysis for Robust Microarray Summarization
Bioconductor version: 3.0
The package provides the summarization algorithm called Factor Analysis for Robust Microarray Summarization (FARMS) and a novel unsupervised feature selection criterion called "I/NI-calls"
Author: Djork-Arne Clevert <okko at clevert.de>
Maintainer: Djork-Arne Clevert <okko at clevert.de>
Citation (from within R,
enter citation("farms")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("farms")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("farms")
| R Script | Using farms | |
| Reference Manual |
Details
| biocViews | GeneExpression, Microarray, Preprocessing, QualityControl, Software |
| Version | 1.18.0 |
| In Bioconductor since | BioC 2.7 (R-2.12) |
| License | LGPL (>= 2.1) |
| Depends | R (>= 2.8), affy(>= 1.20.0), MASS, methods |
| Imports | affy, MASS, Biobase(>= 1.13.41), methods, graphics |
| LinkingTo | |
| Suggests | affydata, Biobase, utils |
| SystemRequirements | |
| Enhances | |
| URL | http://www.bioinf.jku.at/software/farms/farms.html |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | farms_1.18.0.tar.gz |
| Windows Binary | farms_1.18.0.zip |
| Mac OS X 10.6 (Snow Leopard) | farms_1.18.0.tgz |
| Mac OS X 10.9 (Mavericks) | farms_1.18.0.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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