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Hi,
When I executed the code of vignette (Part: Case study n. 1 - Pan Cancer downstream analysis BRCA), however, I can’t get the TabCoxNet plot by using the TCGAanalyze_SurvivalCoxNET function. It …
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I've downloaded the maf files using the TCGAbiolinks so I could get the data aligned to the hg38 build. These have a longer TCGA 'Tumor_Sample_Barcode' for example TCGA-61-2096-01A-01W-0722-08 as oppo…
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Hi!,
3 weeks ago I downloaded some copy number data using the following code:
```{r}
STAD
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Hello there,
I'm trying to download the clinical data from GDC TCGA, but when I run the following code:
```
GDCquery_clinic(project = "TCGA-TGCT")
```
it gave me this error:
```
Error in GDC…
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Please add this to your code:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")
BiocManager::install("TCGAbiolinks")
library(TCGAbiolinks)
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Performing this:
query_methyl
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When I use data.table within a function, for example in debug mode, data.table does not work
`#` [`Minimal reproducible example`](https://stackoverflow.com/questions/5963269/how-to-make-a-great-r-r…
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Hi
I've question, whenever xCell performs the ssGSEA analysis, it only uses the ~10,000 genes from the immune signatures, right? So, no problem if the input matrix is a 60,000 transcript or just 20…
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Hello Scissor,
I'm running Scissor, but no matter what alpha I used, it always came out 0 selected cells.
Could you please help me with this issue?
Thanks!
Best,
Yuanjian
```R
infos
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Hello and thank you for this very useful package.
I am trying to create a docker image for amd64 and arm64 machines (as we need reproducibility between users of the lab).
My laptop is amd64 but with…