TRAM and ICA algorithm and command line tools added. Minor bug fixes.  

*Bug fix, for clustering with stepwidth larger than 1 *Bug fix, clustering on disc for reg temporal and regspatial clustering  

Emma 1.2.5 (compared to 1.2.2) fixes: - an issue in ImpliedTimescales calculation (mm_timescale) which caused a NullPointerException under certain situations. - an issue in ImpliedTimescales calculation which caused only the first implied timescale to be correct. - a bug in mm_tpt, which results in output data consisting only of zeros.   

Emma 1.2.2 (compared to 1.2.1) fixes a major bug concerning the restrictToStates option. New features of version 1.2.x include: - mm_observables to analyze MSMs and allow comparison with experimental measurements - detection of dynamical connected microstate - improved count matrix prior when estimating transition matrices - improved reversible transition matrix estimation  

Emma 1.2.1 includes minor bug-fixes compared to version 1.2. Emma is now available in version 1.2. New features include: - mm_observables to analyze MSMs and allow comparison with experimental measurements - detection of dynamical connected microstate - improved count matrix prior when estimating transition matrices - improved reversible transition matrix estimation  

Emma is now available in version 1.2. New features include: - mm_observables to analyze MSMs and allow comparison with experimental measurements - detection of dynamical connected microstate - improved count matrix prior when estimating transition matrices - improved reversible transition matrix estimation   

Emma is now available in version 1.1. New features included: - algorithm for performing Transion Path Theory (TPT), which allows the analysis of the essential statistical features of reactive transitions - Perron-Cluster-Cluster Analysis (PCCA), a dynamical clustering method, which reveals metastable states  

Patched version v1.0Notes