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We have planned to include an analysis of tumor mutation burden as well as a comparison to the tumor mutation burden of adult tumors in TCGA. This issue is for fleshing out the analysis. The manuscrip…
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Docker issue here: https://github.com/mskcc/vaporware/issues/58
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/USCbiostats/selectKSigs
Confirm the following by …
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Hi, I am running into errors when trying to analyze a **single sample VCF** with `MutationalPatterns`.
I am trying to run `plot_contribution()` under the section
> 4.2.3 Find optimal contributi…
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I am currently working on a signatures extraction for a neuroblastoma cancers dataset. The specificity of our dataset is its heterogeneity. Our samples (WGS) come from both untreated and treated patie…
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https://github.com/kgori/sigfit
http://htmlpreview.github.io/?https://github.com/kgori/sigfit/blob/master/inst/doc/sigfit_vignette.html
It's a basic R package which requires STAN, a Bayesian model…
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Tasks needed prior to CCS handoff
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_Tasks needed to complete before Manhattan pipeline gets handed off for testing and CCS runs_
#268 Implementing GetBaseCountsMultipSample
#138/#215 LOHHLA …
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I've been altering the bin size for the test example that is presented in the usage section of the README (not using simulated input). I changed 100 to a variable in the make_counts.sh, compute_mutati…
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I am asking this because I want to combine data from two closely related species with wildly different AT contents, in order to figure out if there are any shared mutational signatures between them. I…
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- Repository: https://github.com/bihealth/SigsPack
- [x] I understand that by submitting my package to _Bioconductor_,
the package source and all review commentary are visible to the
general …