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.
Andrea
--
_____________________________________________
Dr. Andrea Rau
Institut National de la Recherche Agronomique
(GABI / PSGen)
Domaine de Vilvert, Bâtiment 211
78352 Jouy-en-Josas CEDEX
Tel: (+33) (0) 1.34.65.22.82
Fax: (+33) (0) 1.34.65.22.10
http://www.jouy.inra.fr/gabi
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