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`probz`'s accessor includes a [warning](https://github.com/scristia/CNPBayes/blob/991b84bbf4093b7d49676d3cba4c72cfea078db0/R/methods-MixtureModel.R#L216-L225) that it is modifying the value.
```{R}…
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Dear Ploidetect developers,
I am currently benchmarking Ploidetect v1.4.2 on matched tumour-normal hg38 ONT data in order to check how it compares against other CNV callers for potential use in an …
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I am trying to understand the difference between the regions in `_CNVs` and `_ratio.txt` and capture regions BED files. From what I understand, `_CNVs` will have all the regions with alterations after…
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## Bug Report
### Affected tool(s) or class(es)
- gatk/scripts/cnv_wdl/germline/cnv_germline_case_workflow.wdl
- gatk/scripts/cnv_wdl/germline/cnv_getmline_cohort_workflow.wdl
### Affected ver…
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Hi @ShixiangWang,
Hope you're well.
Just noticed that when using the sig_tally() function with the Wang method, the row names in the resulting NMF matrix (tally_wang$nmf_matrix) are unexpectedly…
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Comments extracted from discussions ([1](https://github.com/samtools/hts-specs/pull/465/files#r370681229), [2](https://github.com/samtools/hts-specs/pull/465/files#r370650146)) in #465
@cwhelan
>…
tskir updated
2 years ago
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Hello:
I have tried to use "freec -conf -sample -control " to input Tbam and Nbam, but ,it find Tbam but not find Nbam ,what's the problem? Look forward to your reply ,thanks.
 at east time step are wri…
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When data one alteration type are missing from the TCGA, the package returns a generic message:
> "No alteration to display for the selected tumor types and alteration types"
It would be more us…
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Hello,
There is a problem when outputing seg and vcf file and the total CNV called is zero or one.
There is an example of seg file with one CNV:
```
rhelaers@ddus:~/qdnaseq$ cat CLP-1271-3.seg…