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NLStradamus (version 0.0.3)

What it does

This calls the NLStradamus tool for prediction of nuclear localization signals (NLSs), which uses a Hidden Markov Model (HMM).

The input is a FASTA file of protein sequences, and the output is tabular with six columns (one row per NLS):

  • Sequence identifier
  • Algorithm (posterior or Viterbi)
  • Score (probability between threshold and 1 for posterior algorithm)
  • Start
  • End
  • Sequence of NLS

References

A. N. Nguyen Ba, A. Pogoutse, N. Provart, A. M. Moses. NLStradamus: a simple Hidden Markov Model for nuclear localization signal prediction. BMC Bioinformatics. 2009 Jun 29;10(1):202.

http://www.moseslab.csb.utoronto.ca/NLStradamus