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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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Hi,
I have tested other methods like vadr and virulign to annotate viral contigs, But they failed to annotate viral contigs that have low nucleotide consistency with reference sequences. So, Can gb2s…
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Hi, I've been trying to run VirSorter now and troubleshooting some, but I can't figure out why I'm not getting my viral sequences in my output. When I look in logs/err it's empty, the logs/out looks l…
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Hi Simroux:
Firstly I really appreciated this pipeline you contributed to the viral study. In my case, there are two questions.
I have downloaded 3745 viral Refseq contigs from NCBI and ran…
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Hello,
Im having a strange issue. I have VIBRANT-1.2.0 and VIBRANT-1.2.1, each within its own mamba environment. I have ran my viral contigs through both versions and in each the gff file is blank wi…
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Hi! I had this issue:
```
time VirID assembly_and_basic_annotation -i SRR1007830
5_1.fastq -i2 SRR10078305_2.fastq -out_dir virid_output --threads 24
[2024-10-01 11:41:45] INFO: VirID v3.1.0
[…
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Hi,
Not sure if this issue was already asked about, please direct me to that thread if so. I was trying to run Dram-v on Virsorter2 output, but got an error, the command used and the end of my log …
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Hello! I'd like to use multiple tools for viral genome detection in metagenomes in addition to vs2, and then I want to run the final set of genomes through dramv (after checkv filtering). However, run…
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The reason why I'm asking is because VirFinder, geNomad, VirSorter(2), etc. operate on individual contigs then those results are usually fed into CheckV to determine how complete/contaminated the viru…
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Hello !
I am getting the following error when I run the pipeline.
Traceback (most recent call last):
File "./ViWrap", line 173, in
output = cli()
File "./ViWrap", line 167, in cli
…