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Hello,
I came across this issue twice, whenever there's empty bin set in the refine module, the program exist. Any tips where I should look into?
An example of error message:
```
there are 27 …
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Hi:)
Hello, I am very interested in the tool SHOGUN and want to use SHOGUN for functional annotation.
However, I met some problems because my taxonomy is made with Kraken2 and bracken2.
1). I …
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I work on Gram-positive actinobacteria, which can frequently encoded alternative starts. I've noticed some genes are annotated with a wrong start (frequently too long to comply with an ATG start inste…
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I was wondering if there was any upper limit (either computationally or experimentally) in terms of the size of the genome(s) to run olivar on. I'm trying to design a primer set for multiple organisms…
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I am wondering why my output from classify_bins module does not result in confidence values.
in the user manual it says "The number next to each classification is the confidance (in percent) of th…
yunha updated
6 years ago
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Not sure this is doable or not. What I would like to suggest is to have a 'manual mode segmentation' that can overrule 'predicted segmentation'. Currently, predicted segmentation is based on the patte…
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Hi Daniel,
I run the dashing2 with "./dashing2_savx2 sketch -F bacteria.list -S 1024 --threads 48 -o bacteria.sketch" to get the sketches, and the bacteria.sketch and the bacteria.sketch.name.txt are…
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When I use the `mp_filter_taxa` function, I found that `include.lowest` seems not work, which always return the `include.lowest=False` reuslt. However, when try it using example dataset `mouse.time.mp…
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Request to update the get-ncbi-data to format the taxon table as it would appear in SILVA. Currently, the scripts populates all ranks regardless of presence in TaxID lineage.
Example of actual:
…
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Hello Developers,
Thank you for melon,
I am working on nanopore shotgun metagenomics data and i am using melon.
I want to include fungii and virus genomes as well in the analysis as currently…