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### Describe the bug
The common way to read from Bedrock `ConverseStreamResponse` is apparently to call `response.Stread.AsEnumerable()`. This achieves the goal of streaming the response completions …
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### Description of feature
We are currently using a minimal test dataset for SARS-CoV-2 which is sufficient to test the pipeline but we don't have dbSNP and indel files for this reference.
It woul…
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Edits for [Episode 03](https://github.com/taylorreiter/wrangling-genomics/blob/gh-pages/_episodes/02-variant_calling.md): Variant Calling Workflow
- [x] Replace copying subsampled and trimmed data fr…
fpsom updated
5 years ago
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Issue by @MaxUlysse, moved from SciLifeLab#666
- [ ] [ExpansionHunter](https://github.com/Illumina/ExpansionHunter) for estimating repeat sizes
- [ ] [QDNAseq](https://github.com/ccagc/QDNAseq) CN…
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### Feature request
when initializing with SentenceTransformers, we can use the `truncate_dim` argument, like below:
`model = SentenceTransformer("mixedbread-ai/mxbai-embed-large-v1", truncate_dim=d…
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Hi,
Similar to one of the previous tickets (Segfault occurring during somatic variant calling #50), I am experiencing a Segmentation Fault for certain chromosomes when trying to run Octopus in the …
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I have used your tool on one of my bam files. However, I am wondering why it isn't calling a variant I can clearly see present in the file in IGV. There is plenty of coverage, and few indels in the re…
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Clair3 does not call 16 bp at each end of a reference sequence (https://github.com/HKU-BAL/Clair3/issues/257)
Supplement Clair3 calls with Bcftools mpileup/call?
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According to the investigation of OOM(https://github.com/icgc-argo/workflow-roadmap/issues/136), we will implement the re-try mechanism for Sanger wgs variant calling step as what Alex suggested.
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