msmtools

Tools for estimating and analyzing Markov state models

Science Score: 10.0%

This score indicates how likely this project is to be science-related based on various indicators:

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CITATION.cff file
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codemeta.json file
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.zenodo.json file
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DOI references
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Academic publication links
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Committers with academic emails
10 of 15 committers (66.7%) from academic institutions
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Institutional organization owner
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (8.0%) to scientific vocabulary

Keywords

analysis markov-model markov-state-model

Keywords from Contributors

bayesian-methods hidden-markov-model hmm kinetic-modeling mbar molecular-dynamics molecular-modeling tica umbrella-sampling closember

Last synced: 7 months ago · JSON representation

Repository

Tools for estimating and analyzing Markov state models

Basic Info

Host: GitHub
Owner: markovmodel
License: lgpl-3.0
Language: Python
Default Branch: devel
Homepage:
Size: 1.75 MB

Statistics

Stars: 42
Watchers: 10
Forks: 27
Open Issues: 0
Releases: 0

Topics

analysis markov-model markov-state-model

Created almost 11 years ago · Last pushed over 3 years ago

Metadata Files

Readme Changelog License

README.rst

**This package will soon be no longer or only very sparsely maintained in favor of** `deeptime `__.



MSMTools
========

What is it?
-----------
msmtools is an open source collection of algorithms for the estimation
and analysis of discrete state space Markov chains via Markov state
models (MSM).

The algorithms are implemented using `NumPy `_
and `SciPy `_.

Installation
------------
With pip::

     pip install msmtools

with conda::

     conda install -c conda-forge msmtools


or install latest devel branch with pip::

     pip install git+https://github.com/markovmodel/msmtools.git@devel


Support and development
-----------------------
For bug reports/suggestions/complains please file an issue on
`GitHub `__.

Or start a discussion on our mailing list: pyemma-users@lists.fu-berlin.de

Owner

Name: Markov model
Login: markovmodel
Kind: organization

Repositories: 34
Profile: https://github.com/markovmodel

GitHub Events

Total

Watch event: 1
Fork event: 1

Last Year

Watch event: 1
Fork event: 1

Committers

Last synced: over 2 years ago

All Time

Total Commits: 599
Total Committers: 15
Avg Commits per committer: 39.933
Development Distribution Score (DDS): 0.528

Past Year

Commits: 3
Committers: 1
Avg Commits per committer: 3.0
Development Distribution Score (DDS): 0.0

Top Committers

Name	Email	Commits
marscher	m**r@f**e	283
noe	f**e@f**e	191
Benjamin Trendelkamp-Schroer	b**r@f**e	59
jouno	f**b@p**e	33
Paul, Fabian (fapa)	f**l@m**e	11
Martin K. Scherer	m**r@u**m	5
gph82	g**z@f**e	4
Arvid Krein	a**n@p**e	3
Guillermo Perez Hernandez	g**2@z**e	2
Moritz Hoffmann	c**r@g**m	2
Benjamin Trendelkamp-Schroer	b**r@g**m	2
Christoph Wehmeyer	c**r@f**e	1
unknown	p**l@T**l	1
Ismael Rodriguez Espigares	i**p@t**t	1
thempel	t**l@z**e	1

Committer Domains (Top 20 + Academic)

fu-berlin.de: 5 zedat.fu-berlin.de: 2 telefonica.net: 1 physik.fu-berlin.de: 1 mpikg.mpg.de: 1 physik.tu-berlin.de: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time

Total issues: 31
Total pull requests: 69
Average time to close issues: about 1 year
Average time to close pull requests: about 2 months
Total issue authors: 10
Total pull request authors: 8
Average comments per issue: 4.42
Average comments per pull request: 2.29
Merged pull requests: 61
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 0
Pull requests: 0
Average time to close issues: N/A
Average time to close pull requests: N/A
Issue authors: 0
Pull request authors: 0
Average comments per issue: 0
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

franknoe (13)
marscher (9)
zhanghaomiao (2)
fabian-paul (1)
hexcoffee (1)
debanjansen48 (1)
euhruska (1)
greenTara (1)
pckroon (1)
trendelkampschroer (1)

Pull Request Authors

marscher (30)
franknoe (15)
fabian-paul (9)
trendelkampschroer (9)
evilsetg (2)
alexlafleur (1)
thempel (1)
clonker (1)

Top Labels

Issue Labels

enhancement (3) bug (1)

Pull Request Labels

enhancement (1)

Packages

Total packages: 2
Total downloads:
- pypi 215 last-month

Total dependent packages: 8
(may contain duplicates)
Total dependent repositories: 11
(may contain duplicates)
Total versions: 26
Total maintainers: 3

pypi.org: msmtools

MSMTools

Homepage: http://github.com/markovmodel/msmtools
Documentation: https://msmtools.readthedocs.io/
License: LGPLv3+
Latest release: 1.2.6
published about 5 years ago

Versions: 17
Dependent Packages: 4
Dependent Repositories: 10
Downloads: 215 Last month

Rankings

Dependent packages count: 4.4%

Dependent repos count: 4.7%

Forks count: 8.0%

Average: 9.9%

Stargazers count: 10.8%

Downloads: 21.8%

Maintainers (3)

marscher clonker trendelkampschroer

Last synced: 7 months ago

conda-forge.org: msmtools

'msmtools is an open source collection of algorithms for the estimation and analysis of discrete state space Markov chains via Markov state models (MSM)'

Homepage: http://github.com/markovmodel/msmtools
License: LGPL-3.0-or-later
Latest release: 1.2.6
published over 4 years ago

Versions: 9
Dependent Packages: 4
Dependent Repositories: 1

Rankings

Dependent packages count: 12.5%

Dependent repos count: 24.3%

Average: 29.0%

Forks count: 34.7%

Stargazers count: 44.7%

Last synced: 8 months ago