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Strukov et al. [3] first pin-pointed the pertinent problems in the Joglekar function while implementing in SPICE and then proposed improvements over it.
The computation of matrix exponential function is a vital step in implementing exponential integrators.
Computations were performed using new functions and functions implemented in the ade4 [ 17] and ape [ 18] packages written in the R software [ 19] [see Additional file 1].
All models were convolved with a "canonical" hemodynamic response function as implemented in SPM5.
Heatmaps were produced using the heatmap.2 function as implemented in the R-package gplots (version 2.10.1).
This structure was refined using the Rosetta energy function as implemented in FlexPepDock (London et al., 2011).
In this study we performed stepwise variable selection using the stepclass function with the lda function as implemented in R [ 16].
All BOLD signals were modelled as box car functions representing stimulus onset and duration convolved with a synthetic haemodynamic response function as implemented in SPM99.
In analogy to FunCat enrichment analysis at the FGDB server, assessment of statistically significant GO term enrichment utilized the hypergeometric distribution function as implemented in MS Excel.
At this scope we used the function loess.smooth implemented in the R package stats.
In this function (implemented in Lines 17 25), a random initial state is selected from the transition state space T in Line 17.
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