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Exploits the pairing information issued from inserts of potentially any length. Edena determines suited overlaps cutoffs according to the contextual coverage, reducing thus the need for manual parameterization. It relies on simultaneously exploiting the information provided by short and long paired-end sequence reads to discover paths in the assembly graph. The tool works for inserts of potentially any length by constraining possible paths.

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Edena classification

Edena specifications

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Command line interface
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Edena distribution


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Edena support


  • David Hernandez <>


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Genomic Research Laboratory, Infectious Diseases Service, Geneva University Hospitals, Geneva, Switzerland; Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, CA, USA; BioMérieux, Data and Knowledge Laboratory, Marcy l’Etoile, France; Fasteris SA, Plan-les-Ouates, Switzerland

Funding source(s)

Supported by Swiss National Science Foundation (3100A0-112370/1).

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