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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("sagenhaft")
In most cases, you don't need to download the package archive at all.
sagenhaft
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This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see sagenhaft.
Collection of functions for reading and comparing SAGE libraries
Bioconductor version: 3.1
This package implements several functions useful for analysis of gene expression data by sequencing tags as done in SAGE (Serial Analysis of Gene Expressen) data, i.e. extraction of a SAGE library from sequence files, sequence error correction, library comparison. Sequencing error correction is implementing using an Expectation Maximization Algorithm based on a Mixture Model of tag counts.
Author: Tim Beissbarth <tim.beissbarth at ams.med.uni-goettingen.de>, with contributions from Gordon Smyth <smyth at wehi.edu.au> and Lavinia Hyde <hyde at wehi.edu.au>.
Maintainer: Tim Beissbarth <tim.beissbarth at ams.med.uni-goettingen.de>
Citation (from within R,
enter citation("sagenhaft")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("sagenhaft")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("sagenhaft")
| R Script | SAGEnhaft | |
| Reference Manual |
Details
| biocViews | SAGE, Software |
| Version | 1.38.1 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 11 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), SparseM (>= 0.73), methods |
| Imports | graphics, methods, SparseM, stats, utils |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | http://tagcalling.mbgproject.org |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | sagenhaft_1.38.1.tar.gz |
| Windows Binary | sagenhaft_1.38.1.zip |
| Mac OS X 10.6 (Snow Leopard) | sagenhaft_1.38.1.tgz |
| Mac OS X 10.9 (Mavericks) | sagenhaft_1.38.1.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/sagenhaft/tree/release-3.1 |
| Package Short Url | http://bioconductor.org/packages/sagenhaft/ |
| Package Downloads Report | Download Stats |
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