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Thanks for the great tool - very useful! Do you think there would be any chance of a summary HTML across a cohort of samples that have been through PCGR?
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### Need
As a clinician I want to find CNVs with as high resolution as possible. Currently some target capture bedfiles have regions with a very small size, usually 1 base, and which corresponds to…
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`phase_rare` is failing while attempting to index the output, with errors like the following printed to stderr across all chunks:
```
[W::bcf_record_check] Bad BCF record at 28101822: Invalid CONT…
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There is a bug when I am trying to run mnm_regression.ipynb, which works well at the end of July. I did not see obvious update in recent modification in that pipeline, could be some updates in pecotmr…
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Hi
When I run the BayesTyper v1.4, I got this error. Could anyone please help me to fix this? Thanks
[14/02/2019 06:13:18] You are using BayesTyper (v1.4)
[14/02/2019 06:13:18] Seeding pseudo…
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Hi all,
This is such an awesome review, and i'd love to use it as a basis for teaching, but i've had to jump back-and-forth through sections, as the current structure doesn't flow as naturally for a …
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My own analysis of Illumina (`SRR11140750`, bottom track) and nanopore (`SRR11140751`, top track) data from the same swab sample shows your variant analysis doesn't include indels:
![image](https:/…
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Hi,
Thank you for this awesome program. I have two questions about running it:
_Question 1_
1) In what folder should I open the "BQ" python environment? I currently have two folders relevant to t…
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This request was created from a contribution made by Joyce Anon on April 25, 2022 06:30 UTC.
Link: [https://gatk.broadinstitute.org/hc/en-us/community/posts/5573282748699-Error-ShouldNeverReachHereEx…
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There are a couple of limitations to the current VCF that make it difficult to fully represent data using the full GRC assemblies, GRCh37, GRCh38 and GRCm38 specifically. These are:
- lack of represen…