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Hi there,
I want to extract some mutation data and have been following the following documentation: https://github.com/BioinformaticsFMRP/TCGAbiolinks/issues/new. However, even following the TCGA-C…
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rm(list=ls())
library(TCGAbiolinks)
library(dplyr)
library(DT)
query
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Dear BioCommunity,
i recently implemented the R package TCGAbiolinks, to download raw HTSEQ counts for a provinsional cancer TCGA dataset (COAD). My code used was the following:
> query.exp.hg38…
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I did
```r
library(TCGAbiolinks)
query_cnv In addition: Warning message:
> In rep(no, length.out = len) : 'x' is NULL so the result will be NULL
Debugging GDCprepare found out the error is com…
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I used TCGAbiolinksGUI to get miRNAs relevant to TCGA-PRAD but without success. I get error message -
"**Error- No results for this query**". I am stuck at "**Get GDC data- Molecular Data**"
One ad…
ghost updated
4 years ago
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hey!
thanks for developing and maintaining TCGAbiolinks
it made live so much easier... till yesterday...
than i ran into a GDC accessibility issue, which i couldn't resolve based on other suggest…
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Hi, thanks for developing such a awesome tool!
I download ”gene level copy number“ using TCGAbiolinks, and I supposed there are five values: -2(del),-1(loss),0(diploid),1(gain),2(amp). But when I dow…
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I'm trying to get the gene expression count data from the TCGA-PAAD project, but I keep running into an issue when GDCprepare is adding clinical information. Here's what I ran:
```R
query
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Hi, thanks for your great work! It seems that "TCGAbiolinks" has been updataed, or something is wrong with my system. I have three questions:
1. The p-value by "TCGAanalyze_survival" is based on l…
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If we look at the installed R packages in the docker, they occupy about 4GB space. You can show the largest packages by using
`du -h -d1 /usr/local/lib/R/site-library/ | sort -h`
inside the doc…