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cdanielmachado
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carveme
CarveMe: genome-scale metabolic model reconstruction
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Missing SBO Terms in XML Output with CarveMe
#212
xuetingyue
opened
1 month ago
0
Multi-process processing error
#211
green34567
opened
1 month ago
1
Too many charge unbalaced reactions
#210
AnnyMais03
opened
1 month ago
0
installation issue
#209
ChenCongZ
opened
2 months ago
0
Inconsistencies between reactions in universe file and in model generated from it
#208
Brunokemon
opened
2 months ago
2
Added fast_gapfill options to cli
#207
djinnome
closed
2 months ago
0
Relax binary constraint for fast gapfill
#206
djinnome
closed
2 months ago
0
Carveme not finishing with SCIP solver
#205
ryan-boobybiome
opened
5 months ago
0
Carveme 2.0
#204
rhernandvel
opened
5 months ago
0
Incomplete cyanobacteria universe - lacks photosynthesis related reactions
#203
GediminasA
opened
5 months ago
1
Advice on custom media and initialisation
#202
ryan-boobybiome
closed
5 months ago
1
Location of gapfill outputs
#201
AzizBenA
opened
6 months ago
0
How to include new single species metabolic model in the model database
#200
Mushahid2521
closed
6 months ago
1
SCIP with gap-filling and init
#199
tapj
closed
5 months ago
5
First time installation issue
#198
Sail6666
closed
6 months ago
0
Hidden universe?
#197
NatashaJorge
opened
8 months ago
0
Do not work with scipy 1.12.0
#196
GediminasA
closed
9 months ago
2
Having issues with cyanobacteria universe in latest version, and cplex installation for carveme version 1.4
#195
marlaux
opened
10 months ago
0
Is it necessary to use a VNC server for the modeling process using CarveMe?
#194
Thomas-tang880
opened
10 months ago
0
I meet some errors when I use CarveMe for gap-filling
#193
microbial-cookie
opened
11 months ago
4
How to create a universe?
#192
kako-f
opened
11 months ago
0
ImportError: cannot import name 'SCIPSolver' from 'reframed.solvers'
#191
yqq-79
closed
10 months ago
9
Error when giving user universe
#190
NatashaJorge
opened
12 months ago
0
Biomass reaction in bacteria_universe sums to 1.03
#189
sulheim
opened
1 year ago
1
incompatibility with BIGG formula
#188
Shlomit840
opened
1 year ago
0
'BiGG_gene' is both an index level and a column label, which is ambiguous.
#187
Baizhou12138
opened
1 year ago
1
Diamond version incompatible / TypeError: sequence item 0
#186
chumphati
opened
1 year ago
0
Problems gapfilling with CPLEX and Gurobi
#185
Brunokemon
closed
1 year ago
4
Where to find the biomass equation for FBA?
#184
raysteven
closed
1 year ago
0
GPR rules and COBRA
#183
jiuchuyuan
closed
1 year ago
1
CarveMe doesn’t satisfy the original protein complex definitions during the building of GPRs
#182
lazzarigioele
opened
1 year ago
0
Solver error: pip release not corresponding to latest release
#181
Robaina
opened
1 year ago
0
CarveMe ignores highly similar genes during the building of GPRs
#180
lazzarigioele
opened
1 year ago
0
Error encountered reading the model file
#179
jiuchuyuan
opened
1 year ago
2
The interested compound without BIGG id, could you help me add to the media components that Carveme can identify?
#178
microbial-cookie
opened
1 year ago
0
example codes
#177
parsanayyara
opened
1 year ago
0
Setting cores
#176
stephane-wang
opened
1 year ago
0
How to change the default solver cplex to gurobi？
#175
wupeng1998
closed
1 year ago
4
Inconsistencies in metabolite charges on pre-generated universe files.
#174
Gscorreia89
opened
1 year ago
1
[Feature request] Option to use non-proprietary solvers
#173
jolespin
closed
1 year ago
14
cplex.exceptions.errors.CplexSolverError: CPLEX Error 1016: Community Edition. Problem size limits exceeded. Purchase at http://ibm.biz/error1016.
#172
jolespin
closed
1 year ago
5
[Feature request] Installable via bioconda
#171
jolespin
opened
1 year ago
0
Cplex Error
#170
PaulJames201
closed
1 year ago
8
Gapfilling using a curated sbml?
#169
pushing2
opened
1 year ago
1
Is it possible to predict auxotrophies from metabolic models generated by CarveMe?
#168
ilnamkang
closed
1 year ago
2
error about build model using example
#167
Dodolove725
opened
1 year ago
0
example command meets with format mistak in py3
#166
Chenjlin28
opened
2 years ago
1
GPR universe
#165
arianccbasile
closed
2 years ago
2
Carveme don't do gapfill for user defined medium
#164
NatashaJorge
closed
2 years ago
3
The input genome did not match sufficient genes/reactions in the database.
#163
AnisMansouri
opened
2 years ago
1
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