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kisSplice

[PAGE UPDATED on April, 04 2012]

Description and possible usages

kisSplice calls splicing events from one to n sets of NGS/HTS reads. It takes as input one to n sets of NGS raw reads or an already created de-Bruijn graph. It first constructs the de-Bruijn graph if it is not provided and then detects all patterns in the de Bruijn graph which correspond to alternative splicing events.

Download

Downloading the kisSplice tool imposes the full acceptance of the CeCILL license.
Most recent downloadable version: kisSplice_1.6.3

Mailing List kissplice@inria.fr

Please send a void email to sympa@listes.irisa.fr with the following title: subscribe kissplice@inria.fr Your_first_name Your_family_name

 Versions:

  • [04/04/2012] kisSplice_1.6.3
    • Bug related to mac OS fixed
  • [29/03/2012] kisSplice_1.6.2
  • [14/02/2012] kisSplice_1.6
    • Possibility to chose the output directory (-o)
    • Possibility to run kissplice from any directory
    • Possibility to avoid the computation of SNPs and sequencing errors (-s)
    • Updated manual
  • [03/02/2012] kisSplice_1.5.1 Small bug fixed
  • [23/01/2012] kisSplice_1.5
    • ranking and sorting results on read coverage and not k-mer coverage
    • provides 5 files:
      * uncoherent (a bit useless)
      * Type 0: SNPS / sequencing errors
      * Type 1: splicing events
      * Type 2: Tandem repeats
      * Type 3: Short indels
  • [17/01/2012] Possibility to use k larger than 32 nt (slower) or smaller than 32 (faster) kisSplice_1.3
  • [16/01/2012] kisSplice_1.2
    • Better de-bruijn graph creation
    • Read length unlimited
    • Checks the read coherency and provides read coverage on results
  • [28/10/2011] Fixed small bugs, improved the user guide. : kisSplice_1.1
  • [24/10/2011] First release:kisSplice_1.0