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Porthmeus
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MeMoMe
Metabolic Model Merging - a semiautomated way to merge genome scale metabolic models
Apache License 2.0
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modify the exchange reaction id to their "translated" counterparts
#147
SteFlor
opened
2 days ago
0
Handle exception when there is no entry in the table for the desired metabolite
#146
SteFlor
opened
2 days ago
0
Handling genomes
#145
DafniGi
opened
1 week ago
0
Addition of gapsec annotation and changes in VMH annotation.
#144
DafniGi
opened
1 month ago
4
Fix bug for ModelSEED in origin databases.
#143
DafniGi
closed
1 month ago
0
Jan/feature/137
#142
Porthmeus
closed
1 month ago
2
Implement a .copy() function for the class MeMoModel
#141
SteFlor
opened
1 month ago
2
keep1ToMany not respected
#140
Unaimend
closed
1 month ago
3
Manage diet of the merged model
#139
SteFlor
opened
1 month ago
0
Model merging
#138
SteFlor
opened
1 month ago
2
Annotate inchi might annotate Inchis with conflicting charges
#137
Porthmeus
opened
2 months ago
4
Thomas/feature/130
#136
Unaimend
closed
1 month ago
0
Add examples for the user so they understand what the parameters mean
#135
Unaimend
opened
2 months ago
0
Wrong annotation count
#134
Unaimend
opened
2 months ago
1
Jan/feature/114
#133
Porthmeus
closed
2 months ago
0
Annotation count is reporting wrong numbers when mod.annotate()
#132
Porthmeus
opened
2 months ago
7
MeMoModel.fromModel does not store the cobra model in the MeMoModel object
#131
Porthmeus
closed
2 months ago
0
Add command line parameter for 1toMany merges and unmatches metabolties output
#130
Unaimend
closed
1 month ago
1
Thomas/feature/123
#129
Unaimend
closed
3 months ago
2
Thomas/feature/108
#128
Unaimend
closed
3 months ago
0
implemented #107 - unmatched metabolites can be returned now
#127
Porthmeus
closed
3 months ago
0
Creation of two minimal models to be used as test cases
#126
SteFlor
opened
3 months ago
0
SUPER WEIRD: Metabolites with different inchis match
#125
Unaimend
closed
3 months ago
2
Thomas/feature/109
#124
Unaimend
closed
2 months ago
2
Feature flag if databases are missing
#123
Unaimend
closed
1 month ago
0
@Porthmeus Add sensible return
#122
Unaimend
closed
3 months ago
0
Add sensible return
#121
Unaimend
closed
3 months ago
0
Add gapseq as a new database
#120
Unaimend
opened
3 months ago
1
Incorporate sum formula matching in the name matching function to increase sensitivity
#119
Porthmeus
opened
3 months ago
3
Add a force variable to the main to force annotation to not abort even if a database is missing.
#118
Porthmeus
closed
1 month ago
0
Daf/bulk annotate vmh
#117
DafniGi
closed
3 months ago
0
IF https://github.com/Porthmeus/MeMoMe/pull/89 gets merged we have to add a parameter to the main program that enables/disables the output_names stuff
#116
Unaimend
closed
1 month ago
0
Untestable function in MeMoModel
#115
Porthmeus
opened
3 months ago
2
Weird results when merging recon
#114
Unaimend
opened
3 months ago
4
Thomas/feature/110
#113
Unaimend
closed
2 months ago
2
Use Formulars?
#112
Unaimend
closed
3 months ago
0
Fix compartment removal
#111
Unaimend
closed
1 month ago
1
Report name on name match
#110
Unaimend
closed
1 month ago
1
Report common databases for match ob db
#109
Unaimend
closed
2 months ago
1
Properly implement 1toMany matching or the prevention of it
#108
Unaimend
closed
3 months ago
4
Report metabolites that do not have a match somehwere
#107
Unaimend
closed
3 months ago
1
What are gapseq cpds (example cpd90014)
#106
Unaimend
closed
3 months ago
2
Thomas/feature/8
#105
Unaimend
closed
1 month ago
5
Handle the except statement
#104
Unaimend
closed
1 month ago
2
Handle identifiers file not found
#103
Unaimend
opened
3 months ago
4
Figure out how advantageous it would be to annotate with multiple_id databases and if we can't prevent ambigous/wrong assignment
#102
Unaimend
opened
3 months ago
0
Fix warning in origin databases
#101
Unaimend
closed
1 month ago
1
Thomas/feature/81
#100
Unaimend
opened
3 months ago
6
Non descriptive exception handling in MeMoModel
#99
Unaimend
opened
3 months ago
0
Implemented parallel download of databases
#98
Unaimend
closed
3 months ago
0
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