sagenhaft
Collection of functions for reading and comparing SAGE libraries
Bioconductor version: Release (3.20)
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 bioinf.med.uni-goettingen.de>, with contributions from Gordon Smyth <smyth at wehi.edu.au>
Maintainer: Tim Beissbarth <tim.beissbarth at bioinf.med.uni-goettingen.de>
citation("sagenhaft")):
Installation
To install this package, start R (version "4.4") 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 | 1.76.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier (> 19.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), SparseM (>= 0.73), methods |
| Imports | graphics, stats, utils |
| System Requirements | |
| URL | http://www.bioinf.med.uni-goettingen.de |
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_1.76.0.tar.gz |
| Windows Binary (x86_64) | sagenhaft_1.76.0.zip |
| macOS Binary (x86_64) | sagenhaft_1.76.0.tgz |
| macOS Binary (arm64) | sagenhaft_1.76.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/sagenhaft |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/sagenhaft |
| Bioc Package Browser | https://code.bioconductor.org/browse/sagenhaft/ |
| Package Short Url | https://bioconductor.org/packages/sagenhaft/ |
| Package Downloads Report | Download Stats |