Issues

• Subtype Data

  BioinformaticsFMRP/TCGAbiolinks#660 · Filter by author nttg8100 opened on May 11, 2026

• Conflicts of GDCquery() and GDCpreapre() on the arguments of platform when downloading Illumina Methylation Epic chip data.

  BioinformaticsFMRP/TCGAbiolinks#659 · Filter by author LeonLiu-ZL opened on Apr 24, 2026

• GDCprepare Issue

  BioinformaticsFMRP/TCGAbiolinks#657 · Filter by author ZaraForbrigger opened on Feb 19, 2026
  2

• Error in if (ret == 1) break : argument is of length zero when GDCdownload( )

  BioinformaticsFMRP/TCGAbiolinks#656 · Filter by author wanganlin00 opened on Dec 17, 2025

• Error in GDCprepare for TARGET-AML dataset when building SummarizedExperiment

  BioinformaticsFMRP/TCGAbiolinks#655 · Filter by author RFillinger opened on Dec 15, 2025
  2

• Manually patched GDCquery_clinic bug -- incorrect sample set downloaded for TARGET-NBL

  BioinformaticsFMRP/TCGAbiolinks#654 · Filter by author danmonyak opened on Dec 10, 2025

• Loading clinical data TCGA-COAD

  BioinformaticsFMRP/TCGAbiolinks#653 · Filter by author AnneMarchalot opened on Nov 18, 2025

• Issues connecting to GDC API

  BioinformaticsFMRP/TCGAbiolinks#652 · Filter by author atn1004 opened on Nov 7, 2025

• When downloading the clinical data something went wrong

  BioinformaticsFMRP/TCGAbiolinks#651 · Filter by author xiaofengyyy opened on Aug 29, 2025
  2

• Add clinical information to samples：Column disease_response doesn't exist.

  BioinformaticsFMRP/TCGAbiolinks#649 · Filter by author smallboy-code opened on Aug 19, 2025
  4

• Regarding the download of slide pathological staining data from TCGA using TCGAbiolinks

  BioinformaticsFMRP/TCGAbiolinks#648 · Filter by author PanSX-Dr opened on Jun 7, 2025

• Error parsing XML files

  BioinformaticsFMRP/TCGAbiolinks#647 · Filter by author shaniAmare opened on May 18, 2025

• TARGET-NBL "Column disease_response doesn't exist."

  BioinformaticsFMRP/TCGAbiolinks#646 · Filter by author hberkayc opened on May 14, 2025
  7

• Error in plot.window(...) : need finite 'ylim' values in TCGAbatch_Correction

  BioinformaticsFMRP/TCGAbiolinks#645 · Filter by author Ci-TJ opened on Mar 27, 2025

• TCGA-ACC matching wrong clinical data

  BioinformaticsFMRP/TCGAbiolinks#644 · Filter by author cstubben opened on Mar 25, 2025
  9

• SSL peer certificate or SSH remote key was not OK [api.gdc.cancer.gov]

  BioinformaticsFMRP/TCGAbiolinks#643 · Filter by author ptranvan opened on Mar 12, 2025

• Issue when downloading DNA methylation data with GDCdownload

  BioinformaticsFMRP/TCGAbiolinks#642 · Filter by author DanielJMullen opened on Feb 28, 2025
  3

• Error in GDCQuery_clinic("TCGA-PAAD")

  BioinformaticsFMRP/TCGAbiolinks#641 · Filter by author ramyaPurkanti opened on Feb 3, 2025
  3

• GDCquery_clinic not working for some TCGA projects

  BioinformaticsFMRP/TCGAbiolinks#640 · Filter by author raygozag opened on Feb 2, 2025
  2

• GDCquery_clinic not working for TCGA projects

  BioinformaticsFMRP/TCGAbiolinks#639 · Filter by author hnsc-a11y opened on Jan 31, 2025
  22

• Error running setdiff

  BioinformaticsFMRP/TCGAbiolinks#637 · Filter by author Dr-Priyanka-Jain opened on Dec 26, 2024

• Error in GDCprepare: Allele-specific Copy Number Segment - samples duplicated

  BioinformaticsFMRP/TCGAbiolinks#636 · Filter by author sigven opened on Sep 17, 2024

• test failure on ppc64el architecture

  BioinformaticsFMRP/TCGAbiolinks#635 · Filter by author mr-c opened on Sep 10, 2024

• GDCprepare() error: 'I couldn't find all the files from the query. Please check if the directory parameter is right or GDCdownload downloaded the samples'

  BioinformaticsFMRP/TCGAbiolinks#633 · Filter by author maronem opened on Jul 2, 2024

• TCGAanalyze_DEA: Error in names(x) <- value : 'names' attribute [7] must be the same length as the vector [1]

  BioinformaticsFMRP/TCGAbiolinks#632 · Filter by author dBenedek opened on Jun 20, 2024