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Hi ,
when I downloaded MAF data, I encountered an issue that downloading process is ok for several cancer types but crashed for TCGA-PAAD. Please help.
```
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Hi,
I've downloaded the `gdc-client` script for CentOS, and it works fine. Howevre, `GDCdownload` function downloads the script for Ubuntu regardless of the linux distribution you have. Is it chang…
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Dear Group,
i would like to discuss and mention a specific problem that i have encoutered regarding the download/preprocess of specific RNA-Seq data from TCGAbiolinks:
# for the TCGA-COAD RNA-Se…
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When I excuted TCGAanalyze_DEA(), this error occurred:
```
Error in getBM(attributes = attributes, filters = c("ensembl_gene_id"), :
Invalid attribute(s): entrezgene
Please use the function…
ghost updated
2 years ago
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According to [the documentation](https://bioconductor.org/packages/3.7/bioc/vignettes/TCGAbiolinks/inst/doc/download_prepare.html#harmonized_data), I can download the harmonized gene expression or iso…
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Hi
I am using the below code to retrieve Clinical information with TCGAbiolinks. However, the process goes into an endless loop with project **TCGA-LAML** when there is no information to be found.
…
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Hi everyone,
I'm trying to get clinical data but I got error for a few cases.
`cTCGA
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When running PAMES::get_purity(beta) it seems to require normal samples beta values and the AUC-file. Is it possible to run it using only beta-values from the tumor sample?
Best,
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I am trying to analyze the TCGA –LIHC dataset for DEGs but when I get to the data normalization, it says that it is not found
`>dataNorm
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Are you sure that TCGAanalyze_SurvivalKM is selecting samples based on the quantile strategy ? Reading the source code:
https://github.com/BioinformaticsFMRP/TCGAbiolinks/blob/22d73699555b87119bb69f…