alanderos91 BioSimulator.jl issues

alanderos91 / BioSimulator.jl

A stochastic simulation framework in Julia.

https://alanderos91.github.io/BioSimulator.jl/stable/

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issues

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Performance issues, memory leak, high cpu usage?

#44 alext-extracellular opened 3 weeks ago
2
Register package to make it easier to add

#43 adityanprasad opened 1 year ago
0
How to model reactions with complicated rate terms?

#42 askhari139 closed 3 years ago
2
Update installation instructions

#41 alanderos91 opened 4 years ago
0
Unsatisfiable requirements for RecursiveArrayTools (DifferentialEquations)

#40 robertfeldt closed 4 years ago
5
Add save_function and consolidate to MassAction

#39 alanderos91 closed 4 years ago
0
Use single type for mass action kinetics

#38 alanderos91 closed 4 years ago
1
Citation of BioSimulator

#37 oliviaAB closed 4 years ago
1
Add tests and fixes for SamplePath and rate_derivative

#36 alanderos91 closed 4 years ago
1
Merge tests and fixes for `SamplePath` and `rate_derivative`

#35 alanderos91 closed 4 years ago
1
Higher-order mass action reactions

#34 alanderos91 closed 4 years ago
1
Docs for "Stable" still point to v0.5

#33 alanderos91 opened 4 years ago
0
Reaction with more than 3 reactants

#32 oliviaAB closed 4 years ago
4
No more 'trials' in simulate?

#31 oliviaAB closed 4 years ago
1
Question about how to get time course for specific variables

#30 skycolt closed 4 years ago
2
Partial fix for dependencies

#29 alanderos91 closed 4 years ago
0
Failed loading error

#28 skycolt closed 4 years ago
6
Big update

#27 alanderos91 closed 4 years ago
0
Update to Julia 1.2.0

#26 oliviaAB closed 4 years ago
1
Request to register reaction number

#25 skycolt opened 4 years ago
1
Clean up summary stats; transpose error bars

#24 alanderos91 closed 4 years ago
1
Easy way to resume the simulation

#23 skycolt closed 4 years ago
7
Very regular pattern of the variance profile

#22 skycolt closed 4 years ago
3
Make `simulate` flexible in keyword argument types

#21 alanderos91 opened 4 years ago
0
unexpected 0s in the output

#20 skycolt closed 4 years ago
6
Change parameters of the model

#19 skycolt closed 4 years ago
5
InexactError with TauLeaping()

#18 oliviaAB closed 4 years ago
7
Doesn't work on Julia 1.1?

#17 NOTtheMessiah closed 5 years ago
3
Develop

#16 alanderos91 closed 5 years ago
2
Import warnings during BioSimulator installation

#15 oliviaAB closed 5 years ago
1
Update to Julia v0.7

#14 alanderos91 closed 5 years ago
2
Update code for Julia 0.7

#13 oliviaAB closed 5 years ago
2
added citation instructions

#12 klkeys closed 5 years ago
2
Add benchmarks

#11 alanderos91 closed 5 years ago
2
citation instructions

#10 klkeys closed 5 years ago
3
benchmark code?

#9 klkeys closed 5 years ago
3
UndefVarError: Error not defined

#8 oliviaAB closed 5 years ago
3
Check for correct order in DataFrame; fix ::Type{Val{S}}

#7 alanderos91 closed 5 years ago
1
Check for order in DataFrame

#6 alanderos91 closed 5 years ago
0
Extract transition matrix

#5 rveltz closed 5 years ago
2
Output dataframe with wrong column names (get_dataframe function)

#4 oliviaAB closed 5 years ago
2
Problem (and solution) when installing the package

#3 oliviaAB closed 6 years ago
0
Update for new TikzGraphs version

#2 alanderos91 closed 6 years ago
1
Minor fixes

#1 alanderos91 closed 7 years ago
2