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PoisonAlien
Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
I ran into error in **subsetMaf** and **summarizeMaf** when my cnv file only contains 3 columns: "Gene symbol", "Sample ID", "CNV call". And I have tried to fix them. Please...
Is it possible to extract information about which mutations are in each cluster found by oncodrive?
Can I easily extract which mutations are within each of the clusters in each of the genes. For example if the oncodrive results say there are 35 mutations in clusters...
Hi, I'm running the same app in two different machines, my laptop and a workstation. In one, the code works just fine, in the second one, it fails with the...
would it be possible to add parameters in oncoplot such that users can reduce/increase space of column bars and row bars? It's great to see we can customize barcode and...
Few functions in maftools support BSgenome objects. Would it be possible to add the same support to `rainfallPlot` to specify the ref.build to non-human genomes?
I want to rename the values on the x-axis to be as "C:G>T:A', 'C:G>G:C', 'C:G>A:T', 'T:A>A:T', 'T:A>C:G','T:A>G:C" instead of the other representation (the 6 mutations) because it is misleading. Is...
First off thanks for this amazing tool! I really appreciate you sharing it with us. I have a minor suggestion. What I expect from an oncoprint is: 1) row barplot:...
Hi, a suggestion for adding the expression table (just like "exprsTbl =") in oncoplot to the cooncoplot function. Best
The documentation has > ... a column containing Tumor_Sample_Barcodes ... but if I have such a column, it seems that the code wants a column named Tumor_Sample_Barcode instead. ```r Error...
The reason for this stems from a request from the wet lab people that called the oncoprints with CN and mutations overlapped "confusing" (there are a lot of events in...
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Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.