Collection of functions for reading and comparing SAGE libraries

Bioconductor version: 2.8

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 <beissbarth at>, with contributions from Gordon Smyth <smyth at> and Lavinia Hyde <hyde at>.

Maintainer: Tim Beissbarth <beissbarth at>

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PDF R Script SAGEnhaft
PDF   Reference Manual


biocViews SAGE
Depends R (>= 2.10), SparseM (>= 0.73), methods
Imports graphics, methods, SparseM, stats, utils
System Requirements
License GPL (>= 2)
Depends On Me
Imports Me
Suggests Me
Version 1.22.0
Since Bioconductor 1.6 (R-2.1) or earlier

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Package Source sagenhaft_1.22.0.tar.gz
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MacOS 10.5 (Leopard) binary sagenhaft_1.22.0.tgz
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