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We should add default codon tables of the following organisms:
1. Escherichia coli MG1655
2. Bacillus subtilis 168
3. Vibrio natriegens (whatever type strain)
4. Saccharomyces cerevisiae BY4741/…
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Hi,In the reported paper "Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model", ``r_1912`` is the biomass production reaction in which the protein coefficient is the …
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Version: funannotate-1.8
Goal: Annotate assembled genome without RNA-seq data
I followed the "Genome Assembly Only" tutorial https://funannotate.readthedocs.io/en/latest/tutorials.html#genome-asse…
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Hello,
as.mo() struggles a bit with yeasts.
Some yeasts may have two names that correlate to the growth state of the fungus: an anamorph name associated with asexual growth and replication (mi…
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Do you happen to have taxon identifiers for the training data in this file?
https://genome.cshlp.org/content/suppl/2018/03/22/gr.228429.117.DC1/Supplemental_Table_S1.xlsx
It's currently difficu…
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I am unable to buildDB, initially I suspected it was because the fna files were gunzipped but after un-gzipping them, a new issue arose.
I used the following commands to download a smaller version …
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Learn the default proccess...
The same process crediturs use when you fail to pay a bill timely.
"A defaulted affidavit stands as truth in law"
Affidavit / default & notice to cure / final de…
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Hello Matthijs,
Thank you for continuing to maintain and update this great package.
The problem is that as.mo("Candida auris") is wrongly identified as just Candida and is treated as an uncertai…
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It has been agreed that all original models' structures (version controlled or not) should be loaded from their corresponding `SBML` file. Currently, the version of the model can be obtained in severa…
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from PMID:32909946
In S. cerevisiae
Atg1 kinase activity is controlled by other Atg proteins. In S. cerevisiae, two scaffold proteins Atg13 and Atg17 are required for activating Atg1 kinase during…