TCGAbiolinksGUI

TCGAbiolinksGUI copied to clipboard

maf

shaopopper

The RStudio session shows the following code: > TCGAbiolinksGUI() The `name` provided ('picture-o') does not correspond to a known icon The `name` provided ('picture-o') does not correspond to a known...

NotAPoetButACriminal

Hi, I get this error when I try to normalize my .idat files: Error in download.file(url, method = method, ...): cannot open URL 'http://zwdzwd.io/InfiniumAnnotation/current/EPIC/EPIC.hg19.manifest.rds' Could you please help me with...

San-meth

Dear all, I want to export an Oncoprint or Maftool plot as a PDF from the TCGAbiolinksGUI environment. I can now only save the online picture as PNG. The export...

Tommetje007

Disconnected from the server when trying to preform DEA analysis

1

Hi, I have a problem with preforming DEA analysis on TCGAbiolinksGUI. Whenever I try to preform a DEA analysis for Summarized Experiment for TCGA-LIHC dataset, I instantly receive the note:...

rokrazpotnik

Warning: Error in if: argument is of length zero

2

When I want to make the volcano plot, I load the DEA file, but the a is crashing,and leave the message.

StarXian

problem in new_tumor_event_after_initial_treatment in XML clinical data

5

Hello When I used TCGAbiolinks for downloading clinical data, I found a problem in XML clinical data. In XML clinical data, There is a column that shows new_tumor_event_after_initial_treatment or new...

AlirezaShokrollahi

Afternoon! Just had a quick question, am fairly new to TCGA. When I went to create a heatmap from a SE and results file, after inputting all of my choices,...

gaherrgott

Error message in TCGAbiolinksGUI

2

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-...

ghost

Unable to synthesize "rda" files after downloading DNA methylation data. parameter: **Molecular data search**/Molecular data/ Harmonized database (hg38)/TCGA-BLCA/DNA Methylation/Illumina Human Methylation 450/ **Download & Prepare**/SummarizedExperiment/

liubitian