_______________
New functions
_______________
ChangeTop::SingleSiteGibbsSample
// Updates the specified hidden state variable with
// Gibbs sampling.
ChangeTop::GibbsSampleOfStateSequence()
// Samples new state variables for the whole sequence
// with Gibbs Sampling.
ChangeTop is a class derived from class
HmmCalc.
______________
Changes made
______________
treemanip2.cc
Code for the functions above added.
treemanip.h
The above methods added to class ChangeTop.
prog.cc
Function ProposeTop changed to make a call
to the new functions and replace the old function
GibbsProb.
PrintStateSequence() added to
class HmmCalc.
_______________
New functions
_______________
void HmmCalc::ReadInitialMosaicStructure()
// Allows reading in an initial mosaic structure
// from file
______________
Changes made
______________
treemanip2.cc
Code for the functions above added.
treemanip.h
The above methods added to class HmmCalc.
prog.cc
A call to the above function added as an alternative
to a random initialisation.
ChooseOptions.h
New element to structure Options: char readInitMosaic[4]
// If YES read in initial mosaic structure
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