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An interesting point was raised by Aya: how can we be sure the plasmid contained in the mother cell will be transferred to the minicell?
It was then suggested that we look at the iGEM Vilnius-Lithu…
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I am looking for a more detailed description of the binning process for Hyasp plasmids. I set the binning parameter to -b 1, which I think means that it will group plasmids together if they are one st…
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Hi,
I'm looking to tune the parameters for wtdbg2 (or troubleshooting in general) for recovering a smaller plasmid (~5k in size, many reads with the entire plasmid contained) that miniasm finds, bu…
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Hey Rhys,
There seems to be an issue with the rule checkm_rosella for which it'd be great to get your insight on.
The initial error message is:
```
Error in rule checkm_rosella:
jobid: …
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Derrick,
I notice that often my pure bacterial samples still get 5% say of reads being unclassified. When I assemble these reads, they turn out to be bacterial plasmids.
The problem is that _some_ o…
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Hi,
GetOrganelle works well for mitochondria and chloroplasts. Do you think it would for assembling bacterial chromosomes or bacterial plasmids?
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I'm using the GPU docker container as follows (using singularity) `singularity run \
/home/mnguye99/scratch_small/mnguyen/bin/deeplasmid.sif \
deeplasmid.sh test.fasta test`, but obtain the error
…
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We should this link to the protein production of SARS-CoV-2 Mpro TEP section
https://www.protocols.io/view/sars-cov-2-mpro-small-scale-expression-and-purifi-rm7vzj8p8lx1/v1
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Can you fix/float the heading for ASP/Alias/Length/Resistance/Etc. such that it remains viewable at the top of the window even as you scroll down the page so that it's easy to figure out what number c…
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I have identified a problem when running _shovill 1.1.0_ and passing the option `'--plasmid'` to _spades_.
### How to reproduce the problem
`shovill --outdir {output_folder} --R1 {R1_file} --R2 {R…