Novel strategy for selecting best parameters for gene functional annotation routines in merlin
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Novel strategy for selecting best parameters for gene functional annotation routines in merlin
SamPler is a novel strategy for selecting parameters for gene functional annotation routines.
This semi-automated method is based on the manual curation of a randomly selected set of genes/proteins.
Then, in a multi-dimensional array, this sample is used to assess the automatic annotations for all possible combinations of the algorithm’s parameters.
These assessments allow creating an array of confusion matrices, for which several metrics are calculated (accuracy, precision and negative predictive value)
and used to reach optimal values for the parameters.
SamPler was implemented as a new plugin for merlin’s current version. merlin is freely available at http://www.merlin-sysbio.org/.
