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I am tryng to compute the gene KOs for a large network, Human-GEM, but it is stucked in preprocessing.
Is this normal?
Strain design computation progress:
Preparing strain design computation.
Us…
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Hello,
I am trying to create context-specific GEM models for my transcriptomic data using the Cobra toolbox and gurobi solver in Matlab. I have created models before using the same Human-GEM guide. N…
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Hi @JamesPino
According to [Santos-Merino 2023](https://doi.org/10.3389/fmicb.2023.1126030), they reported the following confusion matrix:
![Screen Shot 2023-05-30 at 7 55 54 PM](https://github…
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@brynnz22 submitted a JSON file to the `/metadata/json:submit` endpoint.
The corresponding run on Dagit failed:
![image](https://github.com/microbiomedata/nmdc-runtime/assets/134325062/2c643da2-…
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Creation of network should not only be possible for C. elegans, but also for other species.
Therefore a generic input is required. An important factor is the order of reactions, because reactions dep…
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Dear RIPTiDE team!
Our research group uses genome-scale metabolic modelling approach to investigate metabolic systems of pro- and eukarytic organisms. We have been working on the reconstruction and…
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**Submitting author:** @ym2877 (Yoli Meydan)
**Repository:** https://github.com/korem-lab/pymgpipe
**Branch with paper.md** (empty if default branch): joss-paper
**Version:** v0.15.0
**Editor:** @fboe…
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Hi,
I am trying to curate stoichiometric inconsistency problem for a newly reconstructed genome-scale metabolic network. In this regard, I am checking the consistency via MEMOTE test suits after ea…
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### Description of the issue:
Error in loadGSC("/mnt/workspace_dierickx/kcui/mouse-gem/Mouse-GEM/model/Mouse-GEM.xml") : no gene association found
Hi,
I am using mouse-GEM model. I load xml fil…
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Hi,
I'd like to first note that I'm a nearly complete novice in metabolic modeling and systems biology
I'm interested in microbial auxotrophy, and I want to predict auxotrophies using only genom…