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Dear,
I used Vs2 for fecal samples in the past, and it worked very well. Now I'm working with skin samples, and I can only identify a minor number of viruses using vs2. (1) Just to confirm but coul…
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Hello I'm trying to create the standard Kraken 2 database, with the following command:
kraken2-build --standard --threads 16 --db kraken-Sdb
I'm getting this:
Step 1/2: Performing rsync file …
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Pre-check:
- [] I have searched the [`vneyard` repository](https://github.com/kraemer-lab/vneyard) and was not able to find a similar module that already exists.
Proposed module name [e.g. 'Downlo…
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Hi all,
May I know whether virsorter2 is capable to bin COVID genomes? I tried once but failed.
Thx!
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If the output of the workflow contains `normally` failed (red) datasets (which I think is expected when empty inputs from oasis crash blastn), this should be clearly indicated in the documentation, ot…
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Hi!
Thanks for krakenuniq!
I am having memory issues when trying to classify. This is the error I get:
**classify: unable to mmap database.kdb: Cannot allocate memory**
I am running in a cluster w…
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Hello
thanks for sharing this script!
I have a set of viral sequences from different locations and I would like to test your script for SM inferences.
With your example dataset I was able to get t…
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Hi! I am struggling to build a database. I'd like to resolve the following error.
```
/mnt/data1/centrifuge/indices$ make THREADS=8 p_compressed+h+v
Making: p_compressed+h+v: p_compressed+h+v
make…
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Is there a way to adapt the pipeline for nonhuman organisms?
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Hello,
I would like to use Survirus to detect integration sites in human cancer cells from RNA-seq data.
I'am currently testing the tool on the sample L526401A for which viral integration site hav…