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SBRG
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cobrame
A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
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Adding translation reaction without utility function
#40
FH96
opened
4 days ago
0
Cannot build docker image
#39
mheydasch
opened
1 week ago
0
CobraPy version not being correctly detected
#38
geno-nvenayak
closed
10 months ago
2
Cannot convert expression to float in build_me_model.ipynb
#37
bigsuicideparty
opened
2 years ago
1
Changing objective function for optimization in COBRAME
#36
sumanasri
opened
4 years ago
0
biomass constituents
#35
weif000
opened
4 years ago
1
In algorithms.py,function binary_search()
#34
weif000
closed
5 years ago
2
[question] Auxotroph E. coli
#33
emarquezz
closed
5 years ago
0
COBRAme workshop
#32
fairquestion
opened
5 years ago
0
Tiny fix in docs
#31
tiermak
closed
5 years ago
2
Access to MiniME or pickled version of iJL965_ME that does not depend on MiniME?
#30
djinnome
opened
5 years ago
9
Runtime error when attempting to remove genes from model
#29
djinnome
opened
6 years ago
3
Allow lower case nucleotide sequences or make error explicit
#28
coltonlloyd
opened
6 years ago
0
Issues that need to be fixed to run Docker version successfully
#27
djinnome
closed
6 years ago
11
FVA in COBRAme
#26
Mzohrabi
closed
6 years ago
1
knockout gene
#25
Mzohrabi
closed
6 years ago
3
[subreaction].enzyme should always be a list or None
#24
coltonlloyd
opened
6 years ago
0
Add docker script
#23
coltonlloyd
closed
6 years ago
1
Remove <metabolite>.mass handling
#22
coltonlloyd
closed
6 years ago
1
Specify metabolite compartments in JSON
#21
coltonlloyd
closed
6 years ago
1
Acetate production prediction
#20
emarquezz
closed
6 years ago
1
processdata.py met does not have formula
#19
emarquezz
closed
6 years ago
1
Model dictlist attributes should only include process_data
#18
coltonlloyd
closed
6 years ago
1
MetabolicReaction should include complex.id
#17
coltonlloyd
opened
6 years ago
0
[question] steps to add a new gene + product
#16
cdiener
closed
6 years ago
2
Allow changing StoichiometricData stoichiometry without changing hidden attribute
#15
coltonlloyd
closed
6 years ago
1
Compatibility with COBRApy versions > 0.6.0
#14
coltonlloyd
opened
6 years ago
0
Implement and test full model JSON saving/loading
#13
coltonlloyd
closed
6 years ago
0
Combine ModificationData and SubreactionData
#12
coltonlloyd
closed
6 years ago
1
Save and load ME-models using JSON
#11
coltonlloyd
closed
6 years ago
0
Linking enzymes to keffs
#10
coltonlloyd
opened
7 years ago
0
model.update() intention
#9
hvdinh16
closed
6 years ago
0
Flag to allow expression of pseudo genes; fixed bug with iteritems
#8
zakandrewking
closed
6 years ago
0
Flag to allow expression of pseudo genes; fixed bug with iteritems
#7
zakandrewking
closed
7 years ago
0
Flag to allow expression of pseudo genes; fixed bug with iteritems
#6
zakandrewking
closed
7 years ago
0
Method to make Escher-compatible JSON
#5
zakandrewking
opened
7 years ago
0
Get translation flux for metabolic reaction
#4
zakandrewking
opened
7 years ago
0
COBRAme JSON loading
#3
zakandrewking
closed
6 years ago
1
Allow prune to skip objects
#2
avsastry
closed
7 years ago
0
Separate check mass balance functions for each MEReaction subclass
#1
coltonlloyd
closed
6 years ago
1