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markovmodel
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msmtools
Tools for estimating and analyzing Markov state models
GNU Lesser General Public License v3.0
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Fixed some pathological cases for PCCA with disconnected matrices
#78
franknoe
closed
8 years ago
0
Allow computation of stationary distribution for weakly connected P-m…
#77
franknoe
closed
8 years ago
0
Fixed normalization in reversible transition matrix estimation
#76
franknoe
closed
8 years ago
0
MLE Trev dense C ext
#75
fabian-paul
closed
8 years ago
1
Fix nonconverged transition matrix
#74
fabian-paul
closed
8 years ago
4
[MSM/estimators] unify covergence criteria of dense and sparse reversible MSM estimator implementations
#73
fabian-paul
closed
8 years ago
6
sparse and dense reversible transition matrix estimation have different defaults
#72
franknoe
closed
8 years ago
0
dense transition matrix estimation is SLOW
#71
franknoe
closed
8 years ago
7
T-matrix sampler fails input check for pathologic (but correct) count matrices
#70
franknoe
closed
5 years ago
2
Reversible decompositions should return real numbes
#69
franknoe
closed
4 years ago
0
[estimation/MLE] Handle case of tiny elements in statdist, which led to eigenvalues > 1 in decomposition.
#68
marscher
closed
8 years ago
1
[util.statistics.confidence_interval]: handling constant data
#67
franknoe
closed
8 years ago
0
util.statistics.confidence_interval fails for constant data
#66
trendelkampschroer
closed
8 years ago
3
[estimation] Bug fix: Check for positivity of c_ij+c_ji when computin…
#65
trendelkampschroer
closed
8 years ago
5
[effective_counts|statistitcal_inefficiency] fix performance due to c…
#64
marscher
closed
8 years ago
10
[setup|ci/travis] removed unused patterns from setup.py; use conda-build
#63
marscher
closed
8 years ago
3
[estimation] Bug fix. i) Sampler with reversible stationary vector ne…
#62
trendelkampschroer
closed
8 years ago
14
added import for analysis.dense.sensitivity
#61
franknoe
closed
8 years ago
3
timescale_sensitivity not found
#60
euhruska
closed
8 years ago
2
[estimation] Implemented thecount
#59
trendelkampschroer
closed
8 years ago
1
Improve documention
#58
franknoe
closed
8 years ago
2
added rate matrix estimation
#57
fabian-paul
closed
7 years ago
17
Metastable decomposition of nonreversible P-matrices with Schur decomposition
#56
franknoe
closed
3 years ago
53
[flux] Docfix
#55
trendelkampschroer
closed
8 years ago
0
[doc] Add contributors to README
#54
trendelkampschroer
closed
8 years ago
1
Add rate matrix estimation
#53
franknoe
closed
5 years ago
1
LGPLv3 headers
#52
marscher
closed
9 years ago
4
LGPLv3 headers
#51
marscher
closed
9 years ago
2
[flux/sparse] Fix pathway decomposition
#50
trendelkampschroer
closed
9 years ago
1
robust stationary distribution function
#49
franknoe
closed
9 years ago
1
[analysis/sparse] Relax toorestrictive tolerance
#48
trendelkampschroer
closed
9 years ago
1
[estimation] New unit tests for reversible sampling.
#47
trendelkampschroer
closed
9 years ago
3
Change license to LGPL
#46
franknoe
closed
9 years ago
4
Convergence tweaks for reversible MLE and sampler
#45
franknoe
closed
9 years ago
0
non-converged transition matrix estimates: are they reversible?
#44
franknoe
closed
7 years ago
2
Add sparse options
#43
franknoe
closed
9 years ago
0
[dtraj] making full dtraj api available
#42
franknoe
closed
9 years ago
0
New readme for msmtools
#41
trendelkampschroer
closed
9 years ago
1
doctest largest_connected_submatrix fails on py3.4
#40
marscher
closed
9 years ago
5
Dtraj api
#39
franknoe
closed
9 years ago
6
Fix doctests
#38
marscher
closed
9 years ago
2
[tmatrix-sampling] follow up fix for PR #33.
#37
marscher
closed
9 years ago
2
effective counts: added options
#36
franknoe
closed
9 years ago
3
transition matrix sampler tests
#35
franknoe
closed
9 years ago
1
estimation.effective_count_matrix is slow
#34
franknoe
closed
8 years ago
0
fix #32
#33
marscher
closed
9 years ago
17
compilation failure windows
#32
marscher
closed
9 years ago
6
Signint handler
#31
fabian-paul
closed
9 years ago
0
bugfix: reversible estimators with fixed pi now correctly return the T matrix, even when not converged
#30
fabian-paul
closed
9 years ago
0
minor corrections to reversible sampler
#29
franknoe
closed
9 years ago
0
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