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Could you please explain why isnt there a fit?
thank you in advance!
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/js2264/HiCExperiment
Confirm the following by edi…
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Hi,
I am really new to this and not really familiar with whats possible in bacterial genomes. Phi pool describes the recombinational divergence of pools of related sequences. Confusingly, I get th…
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Hi Nick and John,
I'm back with other worries on using PopPUNK _not_ on Strep pneumo - but it's been a while I've run the below now so maybe this will all have been addresed in version 2.4.0?
*…
flass updated
2 years ago
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Hi @lh3, as per title - is minigraph suitable for generating bacterial pangenome graphs? All of the examples were eukaryotes that I just saw so just wondering how it will handle gene reassortment and …
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- [ ] GO:0070922 small RNA loading onto RISC -> do not annotate: should be able to annotae to a specific child (miRNA or siRNA)
- [ ] miRNA loading onto RISC involved in gene silencing by miRNA -> …
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I'd like to use CAMISIM to simulate a metagenome with a lot of strain level variation, but I am having some trouble. The documentation states "Artificial strains evolved from real genomes are added to…
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**Versions**
```
poppunk 2.4.0
poppunk_sketch 1.7.4
```
**Command used and output returned**
`poppunk --fit-model threshold --output threshold_poppunk --ref-db database_poppunk --threshold…
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**Submitting author:** @milnus (Magnus Jespersen)
**Repository:** https://github.com/milnus/Corekaburra
**Branch with paper.md** (empty if default branch): main
**Version:** v0.0.5
**Editor:** @csones…
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Hi,
I ran panaroo as follows:
panaroo -i gffFiles/*.gff3 -o panaroo_output --clean-mode strict --remove-invalid-genes
And the resulting gene_presence_absence.Rtab file has 4163 lines but the pan_…