To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("panp")
In most cases, you don't need to download the package archive at all.
panp
|
This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see panp.
Presence-Absence Calls from Negative Strand Matching Probesets
Bioconductor version: 3.1
A function to make gene presence/absence calls based on distance from negative strand matching probesets (NSMP) which are derived from Affymetrix annotation. PANP is applied after gene expression values are created, and therefore can be used after any preprocessing method such as MAS5 or GCRMA, or PM-only methods like RMA. NSMP sets have been established for the HGU133A and HGU133-Plus-2.0 chipsets to date.
Author: Peter Warren
Maintainer: Peter Warren <peter.warren at verizon.net>
Citation (from within R,
enter citation("panp")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("panp")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("panp")
| R Script | gene presence/absence calls | |
| Reference Manual |
Details
| biocViews | Infrastructure, Software |
| Version | 1.38.0 |
| In Bioconductor since | BioC 1.8 (R-2.3) (10 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), affy(>= 1.23.4), Biobase(>= 2.5.5) |
| Imports | Biobase, methods, stats, utils |
| LinkingTo | |
| Suggests | gcrma |
| 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 | panp_1.38.0.tar.gz |
| Windows Binary | panp_1.38.0.zip |
| Mac OS X 10.6 (Snow Leopard) | panp_1.38.0.tgz |
| Mac OS X 10.9 (Mavericks) | panp_1.38.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/panp/tree/release-3.1 |
| Package Short Url | http://bioconductor.org/packages/panp/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
