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# primary tasks
- [x] download TCGA MAF files
- [x] Map TCGA rows to proteins from our datasets
- DONT INCLUDE KIBA UNTIL WE GET ALL AFLOW CONFS (to ensure consistent test sets and so we don't …
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http://firebrowse.org/api-docs/#!/Samples
https://rpubs.com/lwaldron/TCGA_prad
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0106397
https://www.ncbi.nlm.nih.gov/pubmed/26704…
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Hi TCGAbiolinks!
I want to download ESCA and miRNA data, and analyze differentially expression genes according to G staging. But I have a problem with TCGAanalyze_Preprocessing. I run the followin…
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Hello, there are some parameters do not work in TCGAbiolinks::TCGAVisualize_volcano. such as xlim, ylim etc.
I find that these parameters are not used by accessing the source code
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Hello,
I recently ran into some problems with TCGAbiolinks.
I used the TCGAbiolinks package in april 2018 to download the bladder cancer set and ran some analysis. Unfortunately I don't know which v…
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What are the chances the TCGA data used in the README or the code used to collect it from TCGAbiolinks could be made available?
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I am doing the pipeline according this [toturial](https://www.bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/tcgaBiolinks.html).
```r
clin = GDCquery_clinic("TCGA-BRCA","clin…
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tcgabiolinks.fmrp.usp.br/PanCanStem/
Is this website still under maintenance?
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Hello,
I have encontered an error using GDCprepare with gene expression data from BEATAML1.0-COHORT, while trying to add clinical information to samples:
Error in `dplyr::bind_cols()`:
! Can't …
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I work with the ESCA project, looking at Esophageal adenocarcinoma. However, TCGA has placed squamous cell alongside Adenocarcinoma, the diseases are significantly different leading to the immensely p…