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I'm trying to implement the SCOP40 test using the latest foldseek. The `creatdb` command completes; the `easy-search` command runs for a while but then hangs indefinitely. Advice welcomed for how to i…
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I have been running the most recent conda release of RepeatModeler which runs smoothly until round 6. The RepeatModeler job completes, but the LTR Structural Analysis never runs.
LTR Structural Ana…
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hasmember is used in reactome to represent family or set relationships. These are currently represented with hasComponent relationships in BEL, but should instead be represented with hasMember relati…
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Right now there are 155 database cross-references in UniProt:
- http://www.uniprot.org/database/
I want to discuss here
- [ ] which ones are essential
- [ ] a reasonable, flexible model for cross-ref…
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In the Wiki it is stated:
> For long sequences, it may therefore be of advantage to first search the PDB or the SCOP domain database and then to cut the query sequence into smaller parts on the bas…
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Hi
Sorry for the rather naive question. But could you point me to any tutorials on how to setup, for example a KEGG protein family database, to use with shotmap?
After having done quite an amoun…
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EVALUATE THE OBJECTIVE OF USING GET_HOMOLOGUES (Does it do the same as Roary? Ot gould be easier to use Roary)
1) The questions should be something that the student could be asking, and the tool th…
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Hi!
I am trying to annotate a mammalian genome about 2.7Gb in size, I used BRAKER, GeneMarkS-T and TSEBRA "long_reads" branch. I want to use this to play the role of Iso-seq data. The configuration …
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error running the processConservation
Hi Idan,
I have a problem when I run processConservation, I don't know how to resolve the error is :"Subroutine overlap redefined at scripts/Mapping.pm line 364…