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![plot2](https://user-images.githubusercontent.com/112151540/231001569-1841fb80-c4ef-457d-8e49-d271aefd249a.png)
Hi, thank you for the tools!
I have conducted test with around 120 samples with m…
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Hi,
I am trying to run `smoove call` on a set of matched normal-tumor bam files.
I've properly run it on more than 100 WGS samples belonging to a dataset, but I' came up with a problem with the cur…
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## Feature request
Running mutect2 (GATK v4.2.2) in tumor only mode on WES samples and asking it to use/keep germline and PON mutations.
I have noticed that mutect never sets the GT field to be 1/…
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@anhtuduong
Below are the discussion between me and Jacopo recently, keep updated !
**Thu:**
`Hi ! This is the fold 0 training of dataset_2 (with histology), but the dice score is very low ~0.35…
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Given that the animals often occupy only a small part of the image, we may get better performance with a lot of augmentations involving high zoom. This kind of approach is often used with medical imag…
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### Is there an existing module for this?
- [X] I have searched for the existing module
### Is there an open PR for this?
- [X] I have searched for existing PRs
### Is there an open issue …
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Hello CNVkit team
I wonder if you advise on the specification of VCF format for the Theta export command:
`cnvkit.py export theta Sample_Tumor.cns reference.cnn -v Sample_Paired.vcf
`
What infor…
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Current variant calling/Mutect parallelization only uses major contigs right now. But, with B38, this would drop ALT contigs
Not dropping them makes sense, but in general variant calling likely needs…
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```
URL of the application, including the query parameters that specify the
filter:http://explorer.cancerregulome.org/all_pairs/?dataset=kirc_01oct12_A_pw&t
_label=aldh4a1
Using KIRC data set with tu…