[Bioc-devel] New package HTSFilter

Andrea Rau andrea.rau at jouy.inra.fr
Tue Feb 5 09:48:00 CET 2013

Dear developers,

The package HTSFilter is now available in the Bioc devel branch. 
HTSFilter implements a novel independent filtering procedure using a 
data-based threshold for observations with low, constant levels of 
expression in replicated RNA sequencing data. In particular, it features 
the following:

- Data-driven way to select an appropriate filtering threshold, rather 
than an arbitrarily chosen threshold (e.g., mean counts < 5)
- Filtering of observations that appear to generate an uninformative 
signal and have little chance of being identified as differentially 
expressed, thus reducing the number of tests to be performed
- Seamless integration into the DESeq (S4 class CountDataSet) and edgeR 
(D3 classes DGEList, DGEExact, DGEGLM, DGELRT) pipelines for 
differential analysis

Thanks, and I look forward to hearing your feedback.



Dr. Andrea Rau
Institut National de la Recherche Agronomique
(GABI / PSGen)
Domaine de Vilvert, Bâtiment 211
78352 Jouy-en-Josas CEDEX
Tel: (+33) (0)
Fax: (+33) (0)

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