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Answer: Has anyone tried used simple ML models to identify virulence genes?
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Mensur Dlakic
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If all the genes that are different from virulent and non-virulent strains were responsible for virulence, this would be a good approach. T…
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It's possible to replicate the indexing pipeline in `vg autoindex -w mpmap` by using `vg construct` to [make a graph][1], `vg rna` to [add …
Comment: How to keep the same view for different AlphaFold 3 simulations in ChimeraX?
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Picasa
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Thanks a lot for your answer !
Not so related but do you know how to export the PAE plot by command line ?
I usually open like this:
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Comment: Alternatives to UCSC genome browser for obtaining gene coordinates
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I'm trying to match coordinates of methylation probes to the start-stop positions of genes, so alternative transcripts aren't really of int…
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Using the `taxids` option filters the BLAST search results, which come from entire database. That option does not pre-filter the BLAST data…
Answer: How to keep the same view for different AlphaFold 3 simulations in ChimeraX?
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@picasa - first, strictly speaking, @mensur is correct - there is no built-in, universal coordinate system shared by all structure files. S…
Comment: Which tools use or rely on the XA tag in SAM/BAM/CRAM files?
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> It is not about whether the data is online or not; it is about whether the XA tags will ever be needed or not
OP said that the data has …
Comment: Which additional files are needed for the -taxids option in blast?
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See previous topic [here][1]
[1]: https://www.biostars.org/p/200742/
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> Personal agency should be considered a basic human right.
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Your post is essentially off-topic.
I don't think such uninformed and casual discussion of issues that are at best mildly related to bioin…
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> What is the best way to open all my .cif files with the same point of view?
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Second that. Also, it has a title that contains zero information about the actual topic.
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My Answer:
I think you should try at least. It's not a issue of reputation / cost, but a matter of statistics.
Clue:
1. use awk / sed + s…
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and we can see a bug in the system (see recommended posts in the right bar) looks like some spam can make it into the search index even tho…
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To expand on this you could perhaps store the multi mapped alignments separately, or just the XA tags separately in a much cheaper storage …
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