software

Picture of Dr. Dancik
Garrett M. Dancik, PhD
Assistant Professor of Computer Science/Bioinformatics
Department of Mathematics and Computer Science
Science Bldg 257
(860) 465-4587
dancikg [at] easternct.edu

Software

  • CCM: CCM is an R package that implements a Correlation Classification Method that classifies a test sample according to its mean correlation with all training samples having known classes. This is a robust and accurate method for predicting tissue of origin and bladder cancer stage from gene expression data.
  • mlegp : Gaussian processes (GPs) are a common class of surrogate statistical models for predicting the output of non-linear and high-dimensional computer simulations. The R package mlegp incorporates maximum likelihood estimates for Gaussian processes to model univariate and multi-dimensional outputs. A version of mlegp that implements sensitivity analysis is also available by request (see contact information above). We have found mlegp useful for calibrating and analyzing an agent-based model of Leishmania major infection.

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