The Extended Randomized Numerical alignEr
We present ERNE (Extended Randomized Numerical alignEr), a short string alignment package whose goal is to provide an all-inclusive set of tools to handle short (NGS-like) reads. ERNE comprises ERNE-MAP (core alignment tool/algorithm), ERNE-BS5 (bisulfite treated reads aligner), ERNE-FILTER (quality trimming and contamination filtering), and parallel version of the aligners (ERNE-PMAP and ERNE-PBS5).
rNA is an highly performing and sensitive aligner for Illumina reads. We have improved the rNA core algorithm and added several new freatures.
Available software in ERNE package are:
If you use ERNE-FILTER, please cite:
Udated on December 20, 2013