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Jamesflynn1
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pyRBM
A Python framework to build and simulate stochastic rules-based models.
GNU General Public License v3.0
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Updated Documentation site
#56
Jamesflynn1
closed
2 weeks ago
0
Update CONTRIBUTING.md
#55
Jamesflynn1
opened
2 weeks ago
0
Completed Issue 52: distributions
#54
Jamesflynn1
closed
3 weeks ago
0
[FEATURE] Add counting processes to debug Laplace Gillespie
#53
Jamesflynn1
closed
3 weeks ago
0
[FEATURE] Add distribution parsing and distribution functions
#52
Jamesflynn1
closed
3 weeks ago
0
[FEATURE] Add "analyse" feature to norules_behaviour
#51
Jamesflynn1
opened
1 month ago
0
[FEATURE] Build an Event queue system
#50
Jamesflynn1
opened
1 month ago
0
[FEATURE] Make compartment and rule classes share common functions across simulation and build
#49
Jamesflynn1
opened
1 month ago
0
Added Initial Work on various issues
#48
Jamesflynn1
closed
1 month ago
0
[SOLVER] non-Markovian Gillespie Algorithm (nMGA)
#47
Jamesflynn1
opened
1 month ago
0
Issue 33 exact replacements
#46
Jamesflynn1
closed
1 month ago
0
Issue 33 exact replacements
#45
Jamesflynn1
closed
1 month ago
0
Added new solvers, more flexible model construction with build args and general fixes
#44
Jamesflynn1
closed
1 month ago
0
Added work on Laplace Gillespie and added Tau Leaping algorithm
#43
Jamesflynn1
closed
1 month ago
0
Added robust string parsing, better examples of using pyRBM and new algorithms
#42
Jamesflynn1
closed
1 month ago
0
[FEATURE] Add string sanitization, for saving and loading, propensities, var names and compartment names
#41
Jamesflynn1
opened
2 months ago
0
Issue 33 exact replacements follow on
#40
Jamesflynn1
closed
2 months ago
0
Added exact matching for model and location class names in propensity…
#39
Jamesflynn1
closed
2 months ago
0
Move exact replacement work onto its own branch
#38
Jamesflynn1
closed
2 months ago
0
Fixed model variables propensity cache issue
#37
Jamesflynn1
closed
2 months ago
0
Added slot based addressing - final part to proper spatial modelling
#36
Jamesflynn1
closed
2 months ago
0
[ERROR] Cached propensity not updated when model state values change
#35
Jamesflynn1
closed
2 months ago
0
[SOLVER] Laplace Gillespie Solver
#34
Jamesflynn1
opened
2 months ago
1
[FEATURE] Replace .replace function with re.subs in most cases
#33
Jamesflynn1
closed
2 months ago
1
Split compartment and spatial functionality
#32
Jamesflynn1
closed
2 months ago
0
Minor changes for sphinx
#31
Jamesflynn1
closed
2 months ago
0
Added initial docstrings to test formatting
#30
Jamesflynn1
closed
2 months ago
0
[FEATURE] Split Location class into Compartment and create Location subclass
#29
Jamesflynn1
closed
2 months ago
1
[FEATURE] Access matched location name in rule matched propensities
#28
Jamesflynn1
closed
2 months ago
1
Bring active version to v0.0.3
#27
Jamesflynn1
closed
2 months ago
0
V0.0.3 Final release
#26
Jamesflynn1
closed
2 months ago
0
Final Changes for v0.0.3 release
#25
Jamesflynn1
closed
2 months ago
0
Update requirements.txt
#24
Jamesflynn1
closed
2 months ago
0
Initial docs release with function defs/classes
#23
Jamesflynn1
closed
2 months ago
0
Write Simulation module docstrings
#22
Jamesflynn1
opened
2 months ago
0
Write Core module docstrings
#21
Jamesflynn1
opened
2 months ago
0
Write the docstrings for the Build module
#20
Jamesflynn1
opened
2 months ago
0
Add type hints to current functions
#19
Jamesflynn1
opened
2 months ago
0
Added initial pyRBM docs config
#18
Jamesflynn1
closed
2 months ago
0
Update .readthedocs.yaml
#17
Jamesflynn1
closed
2 months ago
0
Added tutorial readthedocs files
#16
Jamesflynn1
closed
2 months ago
0
Added TKO solver, basic solver analytics and a few other enhancements
#15
Jamesflynn1
closed
2 months ago
0
[SOLVER] Hu-Kang-Othmer (HKO) (exact optimised Gillespie)
#14
Jamesflynn1
closed
2 months ago
0
[FEATURE] Add model/solver diagnostic plotting
#13
Jamesflynn1
closed
2 months ago
2
[FEATURE] Create rules and locations from a csv file
#12
Jamesflynn1
opened
2 months ago
0
[FEATURE] Add static constants (location and model) processing from csv
#11
Jamesflynn1
opened
2 months ago
0
Added option for no locations and improved output
#10
Jamesflynn1
closed
3 months ago
0
[FEATURE] Add ability to parse and use time series
#9
Jamesflynn1
opened
3 months ago
1
Error: NoneType when calling simulate for the second time
#8
Jamesflynn1
closed
2 months ago
1
Initial v0.0.2 release code
#6
Jamesflynn1
closed
3 months ago
0
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