TCGAbiolinks
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BioinformaticsFMRP
TCGAbiolinks
Dear Team, I am trying to downloading count data for all TCGA cancer but it seems TCGA-GBM is not getting downloaded. I am getting the same error every time. Could...
I encountered an error in GDCprepare. There are the codes: `query.exp Add clinical information to samples Error in xj[i] : invalid subscript type 'list' ` Thanks.
I am using MMRF-COMMPASS data downloaded using https://github.com/marziasettino/MMRFBiolinks to perform survival analysis calculate for ENSG00000196449 and looks like subjects are being double counted? Length from *sample* to *cfu* variable is...
Hi, I am running the 'Preprocessing of Gene Expression data (IlluminaHiSeq_RNASeqV2)' and 'TCGAanalyze_SurvivalKM: Correlating gene expression and Survival Analysis' R-commands as-is from the Bioconductor page for TCGAbiolinks. However, I run...
i am working on TCGA database and want to prepare clinical data for analysis and normalization.i have data in csv format ,for TCGA biolinks preparation file can be in CEL...
Hello, I was following the [tutorial provided on the TCGAbiolinks website](https://bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/analysis.html#HTSeq_data:_Downstream_analysis_BRCA) to download the HTSeq data from TCGA Prostate Adenocarcinoma dataset. The code I ran was the same as in...
Dear Collegue, I wrote the follow code but I get this error from the TCGAanalyze_Preprocessing function: Error in `$
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-Seq...
Hello! I tried to download mutation data for project TCGA-STAD, but it showed an error with duplicated elements and "cases" column was NULL. Code shows as below. > query project...
Hello, I've downloaded the RNA data and I'd like to match the clinical data to it. However, I'm unsure about how to match the datasets using unique IDs. I see...
