Porthmeus MeMoMe issues

Porthmeus / MeMoMe

Metabolic Model Merging - a semiautomated way to merge genome scale metabolic models

Apache License 2.0

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Re-enable tests

#174 Unaimend opened 6 days ago
0
Create Docker Image

#173 Unaimend opened 1 week ago
0
Start generating and using coverage reports

#172 Unaimend opened 1 week ago
0
Check why VMH/Seed is not used (Maybe we just don't print it)

#171 Unaimend opened 1 week ago
0
Thomas/dev/cleaning2.0

#170 Unaimend closed 10 hours ago
3
Check that the urls are really from identifier.org (use regex)

#169 Unaimend opened 1 week ago
0
Feature/153

#168 Unaimend closed 1 month ago
0
Feature/161

#167 Porthmeus opened 2 months ago
0
small bug, but crucial one, during metabolite matching was fixed

#166 Porthmeus closed 2 months ago
0
Benchmarking and scoring thresholds for matching needed

#165 Porthmeus opened 2 months ago
0
Ste flor/feature/138

#164 SteFlor opened 3 months ago
1
ERRRORRRRRRR: Using value from the first inchi instead of second one. i vs j

#163 Unaimend closed 2 months ago
2
minor fix in annotate chebi

#162 Unaimend closed 2 months ago
0
Annotate and matching runs into errors

#161 Unaimend closed 2 months ago
3
implemented the handling of empty inchi strings in MeMoMetabolite

#160 Porthmeus closed 3 months ago
1
Add annotation source to MeMoMetabolite

#159 Unaimend opened 3 months ago
0
We need to handle empty inchi strings in the MeMoModel class

#158 Porthmeus closed 3 months ago
0
Error during matching: KeyError: 'neutralized_charge_inchi'

#157 Unaimend opened 3 months ago
1
How to handle compartments at the end of metabolites

#156 Unaimend opened 3 months ago
2
Issue with Stefanos Recon version

#155 Unaimend closed 3 months ago
2
Issue with metab annotation

#154 Unaimend opened 3 months ago
0
Performance and Documentation

#153 Unaimend opened 3 months ago
0
added tests for the duplicated metabolite removal functions...

#152 Porthmeus closed 3 months ago
0
origin_databse.py needs rewrite to add new databases

#151 Porthmeus opened 4 months ago
0
Implement more databases

#150 Porthmeus opened 4 months ago
0
Jan/feature/53

#149 Porthmeus closed 3 months ago
1
Check database download

#148 Porthmeus opened 4 months ago
0
modify the exchange reaction id to their "translated" counterparts

#147 SteFlor opened 5 months ago
0
Handle exception when there is no entry in the table for the desired metabolite

#146 SteFlor opened 5 months ago
0
Handling genomes

#145 DafniGi opened 5 months ago
0
Addition of gapsec annotation and changes in VMH annotation.

#144 DafniGi opened 6 months ago
4
Fix bug for ModelSEED in origin databases.

#143 DafniGi closed 6 months ago
0
Jan/feature/137

#142 Porthmeus closed 6 months ago
2
Implement a .copy() function for the class MeMoModel

#141 SteFlor opened 6 months ago
2
keep1ToMany not respected

#140 Unaimend closed 6 months ago
3
Manage diet of the merged model

#139 SteFlor opened 6 months ago
0
Model merging

#138 SteFlor opened 7 months ago
2
Annotate inchi might annotate Inchis with conflicting charges

#137 Porthmeus closed 4 months ago
4
Thomas/feature/130

#136 Unaimend closed 6 months ago
0
Add examples for the user so they understand what the parameters mean

#135 Unaimend opened 7 months ago
0
Wrong annotation count

#134 Unaimend closed 3 months ago
3
Jan/feature/114

#133 Porthmeus closed 7 months ago
0
Annotation count is reporting wrong numbers when mod.annotate()

#132 Porthmeus closed 3 months ago
7
MeMoModel.fromModel does not store the cobra model in the MeMoModel object

#131 Porthmeus closed 7 months ago
0
Add command line parameter for 1toMany merges and unmatches metabolties output

#130 Unaimend closed 6 months ago
1
Thomas/feature/123

#129 Unaimend closed 8 months ago
2
Thomas/feature/108

#128 Unaimend closed 8 months ago
0
implemented #107 - unmatched metabolites can be returned now

#127 Porthmeus closed 8 months ago
0
Creation of two minimal models to be used as test cases

#126 SteFlor opened 8 months ago
0
SUPER WEIRD: Metabolites with different inchis match

#125 Unaimend closed 8 months ago
2