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First of all, amazing work! I've been hoping for something like this for quite some time!
It seems like users upload consensus sequences, which is standard at the moment, but is there any interest …
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Experiment: Single Cell RNAseq from 10x genomics
File Format: I have 2 Lanes (L001 and L002) and I also have for each of the lanes an R1 and R2 file
Reference Genome: Multiple HIV proviral sequences…
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Hi, the software seems very good, but I am new in metagenome analysis and I have questions about the selection of appropriate reference genomes (indexes) when using 'hostile'.
1.
I read the "Refe…
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Gherman, I was wondering - if a viral sequence were present in a sample, would it end up in the cleaned reads (to be sorted out later)? The READ QA folder only contains human sequences pulled out of …
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Hi,
Thank you for developing this cherry_crispr tool for host prediction. My question is about the suitability of the tool. Does cherry_crispr function for integrated viral sequence identified from …
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I am getting following error:
Thu Feb 17 07:53:17 UTC 2022: Identifying viral sequences
Thu Feb 17 07:53:18 UTC 2022: Treating 0 reference sequences as viral sequences.
Thu Feb 17 07:53:58 UTC 20…
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Hi Linxing:
Thank you for developing this nice tool! I am curious about what's the functions does COBRA have in the classic virome pipeline as it's a new software.
For example, I used MEGAHIT to get…
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Hi @njdbickhart ! Awesome tool. When I run the wrapper script, I get a bunch of "Error parsing malformed sam at record: " errors. Otherwise, everything seems normal and I get the expected outputs…
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Hi, I'm trying to download the viral-neighbors db from NCBI, but the download halts with this message. Could you help on that?
```
krakenuniq-download --db $DBDIR viral-neighbors --threads 10
Do…
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Simon requests reports on with status of sequences, e.g., have they been interpreted, interpretation, whether they've been uploaded to GenBank, broken out by country/viral family/test.