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As the project is command-line-based, step by step procedure should be provided about how to use the ModelPolisher after building the project, also showing how output files differ from input thus help…
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I've been using eggnog_mapper to carry out functional annotation of predicted metagenomic proteins, which are primarily prokaryotic in origin, however a number of the terms which my analysis identifie…
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# Description of the issue
http://identifiers.org/kegg.compound/G10504 says Invalid entity identifier
# Page
http://bigg.ucsd.edu/universal/metabolites/lcts
# Browser
Mozilla/5.0 (X11; Ubuntu…
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Escher Map does not contain 3ohodcoa_c, instead it contains 3oodcoa_c
happens here http://bigg.ucsd.edu/models/iJO1366/reactions/ACACT8r
and http://bigg.ucsd.edu/models/iJO1366/reactions/HACD8
…
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I was trying to polish models from https://github.com/SBRG/bigg_models_data/tree/master/models which contain `` tag in them. The list can be seen by doing `grep -Ril "
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# Description of the issue
The MetaNetX folks incorrectly mapped mucl to [MNXM62645 (muonium chloride)](http://www.metanetx.org/cgi-bin/mnxweb/chem_info?chem=MNXM62645) .
It should be: [MNXM1104 (…
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Hi,
I am trying to import a .mat file of a model that was built sometime ago. but unfortunately it throws an error when using the readMatmod function. The error is as shown below. Also the function w…
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Opening on behalf of @anushcph
#### Problem description
> It seems like memote looks for any reaction containing a metabolite or reaction name called “biomass” to identify biomass reactions.
It …
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I tried running eggnog and am not obtaining any EC numbers in all the aligned queries (above 1000).
The command I ran:
./emapper.py -i proteins.faa -o annotation_output --scratch_dir /output_eggn…
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Tactile pavings are also something that does not exists in many countries.
I did not research here yet. Perhaps if someone wants to help, he could get into a Google Streetview car, drive around th…