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Thanks for your excellent work, I am interested in ESP prediction. I tried to execute `Tutorial ESP prediction.ipynb` with no modification and following error was produced in cell[2]. How can I handl…
ryamy updated
10 months ago
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## Background Info:
These are all of the reactions that currently represent the acetyl-CoA carboxylase reaction in Human-GEM:
ID | reaction | GPR | notes
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`MAR04156` | ATP [c] + H…
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Following up on #25594
The ontology editors have proposed to obsolete:
- GO:0001505 regulation of neurotransmitter levels
- GO:0045213 neurotransmitter metabolic process
- GO:0042136 neurotran…
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You said that the saphiro test is done for each metabolite and we report the percentage of normally distributed variables.
Now we need to decide at what percentage of not normally distributed variab…
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Line 83
#add +1 count to the metabolites with 0 because otherwise the Log2FC with NAs
Mean_C1[,which(Mean_C1[1,]==0)]
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Right now any missing information is causes all metabolites to be marked as duplicated. This gives too many false positives.
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This is obviously a big task, but I thought it was worth opening up an issue to discuss.
It would be cool if there was a built in method to calculate and/or aggregate thermodynamic info on bigg react…
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name: RaMP (Relational database of Metabolomic Pathways)
url: https://rampdb.nih.gov/
download:
https://rampdb.nih.gov/about
https://figshare.com/articles/dataset/RaMP_Database_MySQL_Du…
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The code at
https://github.com/Porthmeus/MeMoMe/blob/7aaf56576e9ccd43dca96ba8dc7702b350f44035/src/parseMetaboliteInfoFromSBML.py#L36-L42
specifically, line 40. What is that supposed to do?
Bec…