markovmodel msmtools issues

markovmodel / msmtools

Tools for estimating and analyzing Markov state models

GNU Lesser General Public License v3.0

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issues

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Remove spconstruct

#128 evilsetg closed 2 years ago
0
remove _compressed_sparsed_stack import

#127 evilsetg closed 2 years ago
1
unable to install

#126 debanjansen48 closed 2 years ago
2
fix (reversible) tmatsampling

#125 marscher closed 3 years ago
0
Update README

#124 clonker closed 4 years ago
0
[generation] replaced scipy.stats.rv_discrete by np.random.choice

#123 thempel closed 4 years ago
0
truncate k parameter if it exceeding the amount of valid components allowed by P

#122 marscher closed 4 years ago
0
added random_state handling to traj generation

#121 marscher closed 4 years ago
1
[analyis/RDL] discard imaginary part for reversible input/norm

#120 marscher closed 4 years ago
0
Cleanup test structure, setup now numpy based (like sklearn)

#119 marscher closed 4 years ago
1
msmtools.analysis.dense.pcca._pcca_connected incorrect?

#118 pckroon closed 5 years ago
6
do not require multiprocess, but use stdlib

#117 marscher closed 5 years ago
1
[ceff-matrix] avoid blowing memory by expanding iterator too early

#116 marscher closed 5 years ago
1
Fix ci

#115 marscher closed 5 years ago
2
[estimation/sampler_nonrev] fix dirichlet sampling for non-pos alphas

#114 marscher closed 5 years ago
1
how the backward_committor is calculated?

#113 zhanghaomiao closed 6 years ago
3
Parallelize effective count matrix

#112 marscher closed 6 years ago
1
[base] updated versioneer to 0.18

#111 marscher closed 6 years ago
0
[estimation] constistent return_statdist handling for all tmatrix estimation methods

#110 marscher closed 6 years ago
0
CI does not execute all tests

#109 marscher closed 6 years ago
1
[recipe] modernized

#108 marscher closed 6 years ago
3
[tpt.pathways] Handle case of non-positive flux matrix.

#107 marscher closed 6 years ago
3
ReactiveFlux pathway decomposition does not treat empty flux matrix

#106 marscher closed 6 years ago
0
msm.analysis and msm.analysis.sparse: Decompositions should treat special cases.

#105 marscher closed 4 years ago
0
replaced flatten by hstack for components

#104 marscher closed 7 years ago
0
eigensolver broken for Python 3.5 and Numpy 1.9

#103 marscher closed 7 years ago
0
PCCA Problem (flatten cause error)

#102 zhanghaomiao closed 7 years ago
4
[conda-recipe] avoid accessing SRC_DIR in test-phase, since not supported anymore.

#101 marscher closed 7 years ago
0
[doc] amending changelog for 1.2.1

#100 marscher closed 7 years ago
0
Release

#99 franknoe closed 7 years ago
3
Fix ratematrix assertions

#98 fabian-paul closed 7 years ago
2
[estimation] some corrections and improvements for the rate matrix estimator

#97 fabian-paul closed 7 years ago
1
Generate trajectories for multiple starting states instead of just one

#96 alexlafleur closed 6 years ago
1
Generation of multiple trajectories should allow different starting states

#95 greenTara closed 4 years ago
1
Added fast reversible transition matrix estimation

#94 franknoe closed 7 years ago
0
release msmtools

#93 franknoe closed 7 years ago
1
Sphinx documenatation with support for RTD.org

#92 marscher closed 8 years ago
1
fix self-consistency test

#91 fabian-paul closed 7 years ago
2
[tmatrix-sampler-rev] if initial P is given, use its sparsity pattern.

#90 marscher closed 7 years ago
3
[estimation] removed pure python impl of rev and fixed pi transition matrix estimation.

#89 marscher closed 8 years ago
2
[version] update versioneer 0.16

#88 marscher closed 8 years ago
1
Minor changes

#87 marscher closed 8 years ago
2
Installing msmtools using "pip install msmtools" fails

#86 hexcoffee closed 8 years ago
6
[tmatrix-sampler] added n_jobs parameter to sampler.update method.

#85 marscher closed 8 years ago
6
Removed obsolete count-matrix code and tests

#84 franknoe closed 8 years ago
1
Improved count matrix performance

#83 franknoe closed 8 years ago
5
[estimation/sparse/newton] New primal-dual interior-point solver for …

#82 trendelkampschroer closed 6 years ago
7
please ignore this PR

#81 fabian-paul closed 7 years ago
4
[util/annotators] update to latest version from PyEMMA.

#80 marscher closed 8 years ago
2
made reversible eigenvalue computation more robust and introduced fal…

#79 franknoe closed 8 years ago
13