sagenhaft
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see sagenhaft.
Collection of functions for reading and comparing SAGE libraries
Bioconductor version: 3.9
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("sagenhaft")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("sagenhaft")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("sagenhaft")| SAGEnhaft | R Script | |
| Reference Manual |
Details
| biocViews | SAGE, Software |
| Version | 1.54.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 19 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), SparseM (>= 0.73), methods |
| Imports | graphics, methods, SparseM, stats, utils |
| System Requirements | |
| URL | http://tagcalling.mbgproject.org |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | sagenhaft_1.54.0.tar.gz |
| Windows Binary | sagenhaft_1.54.0.zip |
| Mac OS X 10.11 (El Capitan) | sagenhaft_1.54.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/sagenhaft |
| Source Repository (Developer Access) | git clone [email protected]:packages/sagenhaft |
| Bioc Package Browser | https://code.bioconductor.org/browse/sagenhaft/ |
| Package Short Url | https://bioconductor.org/packages/sagenhaft/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |