-
While translating a media recipe to "feed" my metabolic network model I encountered an error:
http://modelseed.org/biochem/compounds/cpd05147
Potassium iodide formula I instead of KI
cheers
an…
-
I am currently trying to check the membership of model.exchanges to make sure all of the metabolites I have added exchanges for are taken care of properly. When I check for previously existing exchang…
-
Dear Daniel,
I stumbled upon this sentence in the CarveMe publication:
"However, when comparing the total coverage of unique EC
numbers, one can observe that BiGG lags behind modelSEED and KEG…
-
I have tried installing the python version by running `python setup.py install` within the `pypi_installer` folder.
When I attempt to import the module in python the following happens;
`>>> impo…
thh32 updated
6 years ago
-
Dear all,
I did not find any similar question in your issue list. Is it possible to parse a set of BIGG metabolites to ModelSeed?
Some culture media are modeled with BIGG nomenclature but I was…
-
Not sure if this is implemented already.
Set all uptake rates to zero, and maximize all secretion rates. All should return zero, i.e. nothing is produced for free.
PS: Not sure how you guys are …
-
I get several warnings that some reactions/metabolites don't follow the BiGG notation standards.
This seemed strange at first since I only use BiGG reactions to build models. A few problematic case…
-
_From @smoretti on October 7, 2016 14:47_
Hi
There are lots of badly formatted EC numbers in the JSON returned by the API.
Some have spaces in front of the EC number; some have several EC number per…
-
There are universal components of life that make up the biomass of all organisms known. We should check that these components are contained in the biomass reaction.
Amino Acids, Desoxyribonucleotid…
-
_From @smoretti on October 7, 2016 15:11_
Hi
I found some compounds with unexpected characters in formula
E.g.
- AsH-1O3.H4O2.O.Sb2 what is **-**?
- H2O6P2*2 is `*` for polymer with n=2 ???
- C11H1…