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RuleWorld
/
bionetgen
Rule-based modeling framework
https://bionetgen.org/
MIT License
59
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25
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Bump jekyll from 3.6.2 to 3.9.0 in /docs
#225
dependabot[bot]
closed
3 years ago
1
Bump nokogiri from 1.10.8 to 1.11.2 in /docs
#224
dependabot[bot]
closed
3 years ago
0
Changes to SBML export
#223
ASinanSaglam
closed
3 years ago
0
Current implementation of builtin time() function in BNGL gives inaccurate results
#222
jrfaeder
opened
4 years ago
2
Bump nokogiri from 1.10.4 to 1.10.8 in /docs
#221
dependabot[bot]
closed
4 years ago
0
Some output functions can't handle spaces in pathnames
#220
jrfaeder
opened
4 years ago
0
Bump rubyzip from 1.2.2 to 2.0.0 in /docs
#219
dependabot[bot]
closed
4 years ago
1
Bump nokogiri from 1.8.5 to 1.10.5 in /docs
#218
dependabot[bot]
closed
4 years ago
1
Circular function definitions create infinite loop
#217
jrfaeder
opened
4 years ago
0
Copy parameter comments from BNGL to NET
#216
tebuck
opened
5 years ago
0
Adding downloadFile option
#215
ASinanSaglam
closed
5 years ago
0
Rule with high product-side symmetry causes BNG to hang while reading in model
#214
lh64
opened
5 years ago
0
Incomplete error handling in RxnRule.pm
#213
jrfaeder
closed
5 years ago
0
User-defined functions cannot be accessed in Mex-file.
#212
jrfaeder
opened
5 years ago
1
Changing the flag name of scalelevel to poplevel in adaptive scaling method
#211
LifeWorks
closed
5 years ago
3
The scaling method is broken.
#210
LifeWorks
closed
5 years ago
10
Write mfile updates
#209
jrfaeder
closed
5 years ago
0
Integrator tolerance
#208
jrfaeder
opened
5 years ago
0
Is there any way of getting more detail on simulation progress?
#207
iustin94
closed
5 years ago
5
[WIP] sundials 3 compatiblity
#206
keszybz
opened
6 years ago
0
Reactions not found
#205
iustin94
closed
6 years ago
1
Adding the scaling method option in NFsim method
#204
LifeWorks
closed
6 years ago
1
parameter scan with protocols
#203
sag134
closed
6 years ago
0
Implementation of the heterogeneous adaptive scaling method
#202
LifeWorks
closed
6 years ago
7
Question about the Repressillator example
#201
marcoxa
closed
5 years ago
5
alias for writeLatexfile
#200
wshlavacek
closed
6 years ago
0
alias for writeMexfile
#199
wshlavacek
closed
6 years ago
0
Can't call method "mapF" on an undefined value
#198
jczech
closed
6 years ago
4
atomizer and _libsbml
#197
glucksfall
closed
5 years ago
8
Improved progress tracking for simulation runs
#196
johnsekar
closed
6 years ago
1
Automatically generate network code fix
#195
sag134
closed
6 years ago
1
Identical components can have distinct lists of internal states
#194
jrfaeder
closed
6 years ago
1
Perform multiple stochastic runs and generate statistics
#193
jrfaeder
opened
6 years ago
1
Create LICENSE
#192
jrfaeder
closed
6 years ago
0
Support for packaging BNG with Anaconda
#191
alubbock
opened
6 years ago
2
Support for Sundials 3* / 4* / 5*
#190
sagitter
opened
6 years ago
2
Negative rate constants
#189
jrfaeder
closed
2 years ago
0
Sbml multi
#188
jjtapia
closed
6 years ago
0
merge master
#187
jjtapia
closed
6 years ago
0
BioNetGen tries to continue old aborted simulations
#186
rhclark
closed
7 years ago
1
Merge Release into Master
#185
rhclark
closed
7 years ago
0
Merge master into "release"
#184
rhclark
closed
7 years ago
0
Possibly add Bessel functions to the BNG built-in functions
#183
rhclark
closed
5 years ago
1
Permit the use of ln() in the .bngl file.
#182
rhclark
closed
7 years ago
3
merging master with sbml multi changes
#181
jjtapia
closed
7 years ago
0
Deleting a dangling bond should throw exception
#180
cihankayacihan
closed
2 years ago
1
Parsing errors in comparison operators
#179
jrfaeder
closed
8 years ago
1
viz stuff
#178
jjtapia
closed
8 years ago
0
integrating johns new ruleviz changes
#177
jjtapia
closed
8 years ago
0
Johnsekar pc
#176
johnsekar
closed
8 years ago
0
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