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### Current Behavior
Hello,
We upload several SBOM files holding hundreds of dependencies, but when calling ODT API api/v1/bom/cyclonedx/project/XXXX?variant=withVulnerabilities -> we're missing th…
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Hi everyone
I have been working with the National Institute for Communicable Diseases (NICD) on some of their SARS-CoV-2 sequencing. I adapted the "variation" workflow to call variants in Illumina …
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I have run dpclust with pairs of whole genome samples for each patient, comparing the clones between a primary tumour and a metastatic tumour for each patient. The clustering works for all the patient…
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# Issue Report
## Please describe the issue:
We used to run dorado on 4xA100 80GB. But my boss asked me to explore running it on 8xT4 16GB. I did that. 8xT4 runs about 5x slower as expected but s…
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Hi all, currently using klayout via gdsfactory, and I've run into an issue when calling `fill.fill_tiled()` with `n_threads > 1` where klayout segfaults. I believe this is an issue in klayout itself b…
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Hi,
I used SVision-pro to call somatic SVs, but the number of somatic SVs identified is relatively low, only around 500. In comparison, when using pbsv, the number is over 5000. Is it normal?
Be…
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Dear bcbio developers,
For some of the species that we work on we are now starting to receive significant numbers of long read sequenced samples.
The samples are sequenced using nanopore, PacBio …
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Hello there,
thank you for developing and maintaining a great pipeline!
I'm now testing a variant call option on an RNA-seq dataset. Although I have 3 replicates, for this testing I just use 1 of …
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Hi,
I installed Variant Detective to work on bacterial genomes and found that Claire3 is not working - even with the test dataset.
Any idea what causes this behavior.
I have copied the log below fo…
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- Mutect2 calling
- From a combined VCF file with two genotypes {tumor, normal}, annotate the variants with SnpEff, and output a protein XML with those variations
- Adapt `Proteomics.VariantApplicat…