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Hello,
I managed to run through the example provided so I know the code is working. But when I used a bit of sample data I generated a while back it gave me this error when I tried to index the dat…
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Hi,
Thank you for the nice tool. We recently used HiPhase to phase our Pacbio data and encountered a wired issue. As shown in the below figure, one read with supplementary alignment has two HP tags…
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**Publication**: https://www.nature.com/articles/s41586-019-1186-3
**Data source**: https://depmap.org/portal/download/all/
Please keep this checklist for curation of a new study.
- [ ] [create…
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# Bug Report
## Description
When using dvc queue to queue multiple experiments, the worker picks up one or two experiments, runs them successfully, and then stops without processing the remainin…
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- [x] Explore cBioPortal
- [x] See what data is available
- [x] What is their license
- [x] How can we download the data
- [x] etc
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Hi, thank you for the impressive work from your team. I have learned a lot. When I am running the code for run_patch and run_wsi, I always encounter an error at this location: "/project/DPDS/Xiao_lab/…
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Hi,
I have some questions on how to interpret the output of the splicing module and prioritize identified alterations.
First, I want to confirm that any alterations reported by the splicing modu…
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FIRST, we also need to evaluate how we can use the named lists in digits to modify the missing row stats. I think it works if the digits are all named lists (no tidy select, maybe). Minimally it may w…
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@Kekananen check out the 'maf' branch
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I am trying to use somalier to confirm matches between tumor and normal samples from the same patient. `somalier extract` works fine for both .bam files using `sites.hg19.vcf`.
The trouble is with …