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In strain annotations we have plasmids annotated. Historically these, free text, were not in synch with plasmids in the DSC. However, in the past 4 years we only added plasmids that are in the DSC pla…
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@gokeson Could you provide advice on how the pipeline should handle plasmids? In a test run I detected a 7.5kb plasmid, full length!
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(from the BioJS workshop in June 2012)
Represent plasmid annotations in a circular and linear way using an abstract representation. Proposed by Frank Schwach http://plasmogem.sanger.ac.uk/
@fschwach…
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geNomad is such a great and powerful tool that has been especially helpful in my metagenomic analysis in regards to AMR and phage annotations. I noticed that the AMR genes that are output by geNomad a…
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pSB1C3 has been onboarded at TWIST with two insertion sites. The naming of the plasmids within the packages should reflect this.
- pSB1C3 with the BioBrick prefix and suffix
- pSB1CX (Name TBD) wi…
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Hello,
Thanks for the great tool.
I have downloaded a .gb file in a similar way to article_examples/0_download_the_plasmid.py
I have a gene with several isoforms and each isoform is summarize…
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Hallo,
very useful and fast annotation tool!
How can I add the circular tag for complete chromosomes and plasmids in the genbank file instead of editing manually? Is there any option?
compl…
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Hi Seeman,
I downloaded few plasmids sequences in Genbank full format from NCBI for plasmid annotation and ran the following command:
`prokka ENT2_Contig6_len_41186_circ_NDM-1_Plasmid.fasta --ou…
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Just started playing around with DnaCauldron-- super cool module! One thing that isn't a showstopper but would be nice if resolved is that annotations crossing overhangs seem to be lost. it'd be nice …
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Hi,
We've been running BioTraDIS on a .embl file which contains a chromosome and two plasmids ([GCA_000008865.2.txt](https://github.com/sanger-pathogens/Bio-Tradis/files/10115303/GCA_000008865.2.t…