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I use snippy 4.6.0 to calling my bacteria snp,but there are no result ,I wonder what to do next ,thanks.
snippy --outdir 135080RSH2439 --ref 175001_wt/175001R1qc_shovill.fasta --ctgs 135080RSH2439.fa…
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Hello,
Thank you for the software--it seems very promising. I am having an issue with generating results, however, as the output file is always empty and the log only gives an error "WARNING: Reac…
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Hi,
First and foremost, I'd like to thank you for designing such wonderful program. Nevertheless, when I run `database_annotation.pl`, I receive the error `ISOWN/bin/qpipeline: Permission denied`. Th…
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Could this be a version issue with pandas? I'm using pandas 2.2.2 and numpy 2.0.0
```
Building DAG of jobs...
Using shell: /usr/bin/bash
Provided cores: 2
Rules claiming more threads will be sc…
byee4 updated
3 months ago
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It's not clear what the ``vcf_header`` attribute is for, and how complete it is expected to be, and what people are supposed to do with it.
Some fields in the header are clearly redundant (the INFO…
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Claire uploaded some VCFs of type we haven't seen before
https://rollbar.com/jimmy.andrews/VariantGrid/items/2457/?utm_campaign=occurrence_message&utm_medium=slack&utm_source=rollbar-notification
```…
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Hello,
I was using your tool to obtain the SNPs in a fasta alignment and using vcf as an output format. I noticed that in cases where my reference is some nucleotide (A, C, G or T), samples that ha…
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It would be nice to add a vignette that goes from reading in data from a VCF file to genotyping and filtering SNPs.
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### Operating System
CentOS 7
### Other Linux
_No response_
### Workflow Version
v2.3.1-g6a6daa6
### Workflow Execution
Command line (Local)
### Other workflow execution
_No response_
### EP…
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https://explore.anvilproject.org/datasets/1cfec078-e268-44b8-b2ed-39aa8c45d939 and
https://explore.anvilproject.org/datasets/1cfec078-e268-44b8-b2ed-39aa8c45d939
Have markdown in them for example.