ERNE 2.0

Extended randomized numerical aligner
ERNE - Help screen for the application when running it from a terminal window.
  4 Screenshots
ERNE is an easy to use short string alignment application that provides a unique set of tools for handling short reads.

It has multiple components, including ERNE-MAP, ERNE-DMAP, ERNE- BS5 and ERNE-VISUAL.

ERNE is based on rNA, a sensitive and highly performing aligner for Illumina reads.

Main features:

  • Fast and accurate mapping
  • Both single and paired ends reads support
  • DNA-seq, RNA-seq, and BS-seq ready
  • Multithreading
  • MPI-enabled
  • Automatic trimming using FASTQ quality
  • Automatic FASTQ version detection
  • Indels searching
  • Delta-alignment repeatition classification
  • Graphical User Interface

last updated on:
September 30th, 2014, 9:57 GMT
file size:
1.6 MB
license type:
developed by:
University of Udine
operating system(s):
Mac OS X
binary format:
Home \ Math/Scientific
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4 Screenshots
What's New in This Release:
  • bugfix: read 1 insert size is not computed
  • bugfix: reads 2s are incorrectly marked as primary/secondary when all multiple-hit alignments are printed
  • bugfix: does not compile on OSX (see
  • changed: BWTIL library integrated (new BWT algorithm)
read full changelog

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