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I have been running Bakta on >200 genome sequences from bacterial isolates and metagenome-assembled genomes. On all but one this has worked flawlessly. On that one genome, I get an IndexError (see bel…
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Hi there! And congratulations on putting together another amazing tool!
I am writing to ask your opinion on the suitability of vRhyme for a specific dataset I've been working with: A dataset of 80 …
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Hey, I have met some new problems.
When I run with "SemiBin train -i ${wd}/*fa --data ${wd}/output/data.csv --data-split ${wd}/output/data_split.csv -c ${wd}/output/cannot/cannot.txt -o ${wd}/output…
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I need get a taxnomy and otu table which the input from contings , but the atlas create a taxnomy which contain binning ID.
atlas run genomes --skip-binning --resources mem=600 -j 130 is err…
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Hello,
I am having problems with the consensus step of Flye 2.9-b1774 installed in anaconda3, where the pipeline aborts with:
[2022-04-29 09:50:49] INFO: Starting Flye 2.9-b1774
[2022-04-29 09:50…
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### Prerequisites
- [ x ] make sure you're are using the latest version by `seqkit version`
- [ x ] read the [usage](http://bioinf.shenwei.me/seqkit/usage/)
### Describe your issue
* [ ] des…
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I was wondering if it would be possible to polish my contigs using a custom database of genomes. I've identified a number of viruses on Nanopore contigs, but most don't have any similar genome in NCBI…
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Hi,
Thanks for developing this very comprehensive pipeline!
Is it possible to use it to annotate directly assembled contigs rather the bins?
For sure evaluating the quality of the genomes using Bus…
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I just had a brief look at the README while explaining what you do. You did not introduce MAGs and I had to look it up:)
It is metagenomic assembeled genome (MAG)?
Hope you are okay:)
enryH updated
2 years ago
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This is neither a feature request nor a bug, although it's closer to the former.
Thank you for developing such a useful tool. If I understood correctly, ReferenceSeeker can be used with MAGs. If so…
padbc updated
2 years ago