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Test neutral tumor evolution model described in [Williams et al.](https://www.nature.com/articles/ng.3489) on TCGA data.
**Data**: public MAF files
**Script**: R script, which output regressio…
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Hi, is it possible to use coMethDMR to identify differentially methylated regions associated with dichotomous/categorical (e.g. case-control status) phenotypes?
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First off, thank you very much for providing this tool as an open-source solution.
I am a radiologist and must admit that i have little programming knowledge regarding python. Thats why i am strugge…
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Hi,
Thank you for your improvment for tumor-only analysis. Could you give us more informations about the method used please ?
Bests,
Elodie
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Hi,
Thank you for developing this tool which is quite easy to use!
I am wondering if SpecHLA could also be used to detect somatic HLA mutations since we have paired tumor and normal WES or RNA…
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I am performing tumor-normal calling and I'd like the output VCF to contain both a genotype (FORMAT/GT) and per-allele depth (FORMAT/AD). Many downstream tools will want these (I can't change the wor…
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The plot has title "Disease vs GTEX tissue bulk gene expression"
![plot](https://user-images.githubusercontent.com/30905520/131741896-b573a900-8d1f-4c4f-aeed-f6c42cee17e5.png)
The API call has the e…
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Since the topic of liquid biopsies is hot right now, and the use of shallow WGS is actually good enough to identify CNVs with approximately 1Mbp resolution, I think it would be nice to incorporate som…
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**Interop Contact**: Jack DiGiovanna
**Active in 2021**: Active,
**Researche**r: Wilson McKerrow [PDC (CRDC), GDC (CRDC), and GTEx (AnVIL) data]
## Analysis Question
The Fenyo lab is studying how re…