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### Have you checked the docs?
- [X] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting)
- [X] [nf-core modules documentation](https://nf-co.re/docs/contributing/modules)
### …
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> The deletion doesn't actually change any behavior at all in the metapipeline; the metapipeline already greedily takes the first normal BAM and uses it while ignoring the others when ru…
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#### What data file(s) does this issue pertain to?
`pbta-histologies.tsv`
#### What release are you using?
I am comparing `release-v5-20190924` to the current release, `release-v9-20191105`…
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Hi,
Thanks for a very comprehensive resource! I have compiled [a list](https://www.dropbox.com/s/b6ny549bs8mb6f9/tcga_clinical_tissue_diagnosis.v18_20190708.tsv?dl=0) of unique diagnoses assigned to …
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Hello,
I ran svaba on few BAM files (similar samples) . I observed that a SV call is made in some samples and not in others, even though the discordant reads can be seen in the BAM files for all sa…
pwanj updated
5 years ago
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Hi,
I tested the tool with your test data bam bed, now i want to test on Long Read data of GIAB (PacBio/ONT)
1. I was wondering what is `--checkpoint` and how i generate it if i have BAM for To…
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Hello,
Did you apply the survival prediction on slide level or patient level? If it is on patient level can you please let me know how did you convert the slide level prediction to patient level pr…
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Hello, I've run the somatic workflow in Strelka2 version 2.9.2 on a tumour-only-calling assay. But I get the error: "Requested indel error rates for sample index 1 when only 1 samples are defined", "F…
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## Issue description
This issue has for goal to document inference on images with dimensions different from the ones used during training.
## 2D UNet
The 2D model trained for spinal cord segmenta…
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Hi, thank you for your excellent work.
I'm interested in implementing a project related to pancreatic tumors and I'm wondering how to generate a 3D box prompt. In the function call `sparse_embeddin…