pvac
PCA-based gene filtering for Affymetrix arrays
Bioconductor version: 2.10
The package contains the function for filtering genes by the proportion of variation accounted for by the first principal component (PVAC).
Author: Jun Lu and Pierre R. Bushel
Maintainer: Jun Lu <jlu276 at gmail.com>, Pierre R. Bushel <bushel at niehs.nih.gov>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("pvac")
To cite this package in a publication, start R and enter:
citation("pvac")
Documentation
| R Script | density.pdf | |
| R Script | PCA-based gene filtering for Affymetrix GeneChips | |
| Reference Manual |
Details
| biocViews | Bioinformatics, Microarray, OneChannel, QualityControl, Software |
| Depends | R (>= 2.8.0) |
| Imports | affy(>= 1.20.0), stats, Biobase |
| Suggests | pbapply, affydata, ALLMLL, genefilter |
| System Requirements | |
| License | LGPL (>= 2.0) |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Version | 1.4.0 |
| Since | Bioconductor 2.8 (R-2.13) |
Package Downloads
| Package Source | pvac_1.4.0.tar.gz |
| Windows Binary | pvac_1.4.0.zip (32- & 64-bit) |
| MacOS 10.5 (Leopard) binary | pvac_1.4.0.tgz |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Annotation
- Variants
- Flow Cytometry and other assays
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