clasp specifications


Unique identifier OMICS_29778
Name clasp
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS, Windows
Programming languages C
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.1
Stability Stable
Maintained Yes




No version available


  • person_outline Steve Hoffmann
  • person_outline Peter F. Stadler
  • person_outline Christian Otto
  • person_outline Jan Gorodkin

Publication for clasp

clasp citation


Transcriptomic and molecular genetic analysis of the cell wall salvage response of Aspergillus niger to the absence of galactofuranose synthesis

PMCID: 5129474
PMID: 27264789
DOI: 10.1111/cmi.12624
call_split See protocol

[…] e N402 genome based on bidirectional alignments created with LAST (version 417) (Kiełbasa et al., ), with tandem repeat sections masked with TRF (Benson, ). Alignments were combined and chained using CLASP (Otto et al., ). Gaps in the global alignment were improved by performing realignment using either LAST (for large gaps, in sensitive mode) or Needleman–Wunsch (for smaller gaps). Chains with sc […]

clasp institution(s)
Bioinformatics Group, Department of Computer Science, University of Leipzig, Germany; LIFE - Leipzig Research Center for Civilization Diseases, Universität Leipzig, Germany; Center for non-coding RNAs in Technology and Health (RTH), University of Copenhagen, Denmark; RNomics Group, Fraunhofer Institute for Cell Therapy and Immunology, Leipzig, Germany; Santa Fe Institute, Santa Fe, NM, USA; Department of Theoretical Chemistry, University of Vienna, Austria; Max-Planck-Institute for Mathematics in Sciences, Leipzig, Germany
clasp funding source(s)
Supported by the Danish Strategic Research Council, the Danish Research council for Technology and Production, and Danish Center for Scientific Computation.

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