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SimTandem is freely available without any warranty. If you use SimTandem in your work, please, cite us using the following publication:

Jiri Novak, Timo Sachsenberg, David Hoksza, Tomas Skopal and Oliver Kohlbacher. On Comparison of SimTandem with State-of-the-Art Peptide Identification Tools, Efficiency of Precursor Mass Filter and Dealing with Variable Modifications. Journal of Integrative Bioinformatics, 10(3):228, 2013. Download citation: [ris], [bib]



18.9.2013
SimTandem v. 1.1.96 (Windows 7 - x64, OpenMS 1.11) - download
SimTandem v. 1.1.96 (Linux - x64, OpenMS 1.11) - download

  • E-values are calculated for each PSM to enable the support of ConsensusID
  • aa_before and aa_after are reported in the output *.IdXML file for each peptide hit
  • X, C, Z, AX and CZ fragment ion series in theoretical spectra are supported
  • -ini and -write_ini parameters are supported thus SimTandem is visible like an internal TOPP tool in TOPPAS under Identification/SimTandem



28.8.2013
SimTandem v. 1.1.74 (Windows 7 - x64, OpenMS 1.11) - download
SimTandem v. 1.1.74 (Linux - x64, OpenMS 1.11) - download

  • OpenMS 1.11 is now supported



28.7.2013
SimTandem v. 1.1.65 (Windows 7 - x64, OpenMS 1.10) - download
SimTandem v. 1.1.65 (Linux - x64, OpenMS 1.10) - download

  • Linux is now supported
  • a bug was fixed when FileConverter was used as a predecessor of SimTandem



21.7.2013
SimTandem v. 1.1.56 (Windows 7 - x64)

  • non-specific N-terminal and C-terminal variable modifications are now supported (use X to define a non-specific terminal modification (e.g., X(Acetyl)N-term+42.010565;)
  • the list of digestion enzymes has been extended



20.6.2013
SimTandem v. 1.1.44 (Windows 7 - x64)

  • memory optimizations when many variable modifications are being searched
  • N-terminal and C-terminal modifications are now supported (when an amino acid is specified, e.g., "Q(Gln->pyro-Glu)N-term-17.026549;")



15.5.2013
SimTandem v. 1.1.21 (Windows 7 - x64)

  • OpenMS 1.10 is now supported
  • SearchParameters in an output IdXML file were fixed
  • fixed bug: maxVariableModificationsPerSpectrum were not applied occasionally
  • fixed bug: lists of variable and fixed modifications had to end with a semi-colon



3.12.2012
SimTandem v. 1.0.804 (Windows 7 - x64)

  • last version for OpenMS 1.9


 

Contact information

E-mail:
jiri.novak [at] biomed.cas.cz