opencobra / memote

memote – the genome-scale metabolic model test suite
https://memote.readthedocs.io/
Apache License 2.0
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getting the overall score of a benchmark suite test #737

Closed shumantov closed 9 months ago

shumantov commented 1 year ago

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Question

Hi,

I'm running multiple GSMMs (hundreds) in MEMOTE benchmark option, to check their quality, and I'm looking for a way to gather the overall score for each one of the models tested. I appended the test results to an empty file, but could not find that particular value. If it's there, I'm missing it.

Any help regarding this, or another approach I should take in order to asses the overall quality of the models via the benchmark option, would be much appreciated!

Midnighter commented 9 months ago

Hi @shumantov,

I realize that you asked a long time ago. So it's probably not relevant any longer. You could take a look at how we created the analysis for the publication. There we analyzed thousands of results files.

https://github.com/biosustain/memote-meta-study

You are correct that no total score is part of the result file, because the score can only be computed in combination with a particular set of weights for test results.

Midnighter commented 9 months ago

This issue looks resolved from my perspective. Please feel free to re-open if this continues to be a problem for you.