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riboWaltz broken for processing any yeast files
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There is currently a warning advising when to use a yeast starter (if not enough yeast). Right now when I have 100 billion yeast in my recipe and it wants 187 it gives a warning that says "There is cu…
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Hi, I am running graphmap2 on the following data:
Reads:
ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR598/003/SRR5989373/SRR5989373_1.fastq.gz
Reference GTF:
ftp://ftp.ensembl.org/pub/release-94/gtf/…
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Apparently the data is malformed:
```
org.xml.sax.SAXParseException; lineNumber: 7; columnNumber: 2; schema_reference.4: Failed to read schema document 'WEB-INF/spring-beans-2.5.xsd', because 1) c…
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regulation of cytoplasmic microtubule organization
PMID:38442865
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Title | The fission yeast NDR kinase Orb6 and its signalling pathway MOR regulate cytoplasmic microtubule organization du…
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Hi @cschlaffner :
Can you explain in details why we can not do the mapping to taxonomies like _Yeast_ or _E.coli_. This issue can be used to trigger the discussion with **ENSEMBL** and explain the…
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I see how the functionality works now. The user uploaded data and Expression Database data are both accessible from the drop-down menus, which is what we wanted.
However, there is no indicator to …
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Hello,
I am having issues to run foldseek easy-search on my custom database with only yeasts AF2 pdb files. I think that the problem might be because I am asking for the "taxid,taxname" columns in th…
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I have mainly used CRISPR/Cas9 to engineer point mutations in yeast. These are hard to follow after crossing, and we usually added synonimous point mutations that would add or remove a restriction sit…
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Hello @oftadehomid, I am still trying to use ETFL model of yeast. I find it is difficult to update the kcat for specific enzyme using the following code:
## yeast is the ETFL model
yeast.reactions.r…