BioinformaticsFMRP TCGAbiolinks issues

BioinformaticsFMRP / TCGAbiolinks

TCGAbiolinks

http://bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/index.html

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issues

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

#636 sigven opened 2 months ago
0
test failure on ppc64el architecture

#635 mr-c opened 2 months ago
0
fix for colDataPrepare for BEATAML

#634 warbol opened 3 months ago
0
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'

#633 maronem opened 4 months ago
0
TCGAanalyze_DEA: Error in names(x) <- value : 'names' attribute [7] must be the same length as the vector [1]

#632 dBenedek opened 5 months ago
0
Fix duplicates issue when querying expression data

#631 ShixiangWang opened 5 months ago
0
Installation

#630 4479917 opened 5 months ago
0
GDCprepare Error adding clinical information to samples

#629 IvanEllson opened 6 months ago
6
GEO:Error in `left_join()`: ! Can't join `x$ID` with `y$ID` due to incompatible types. ℹ `x$ID` is a <character>. ℹ `y$ID` is a <integer>.

#628 zhihuawang2015 opened 6 months ago
1
dplyr::bind_rows(): ! Can't combine ..368$Tumor_Seq_Allele2 and ..369$Tumor_Seq_Allele2 .One error problem occurred caused by data type during using GDCprepare to handle BRCA data

#627 Lancelof2019 opened 7 months ago
5
Error in GDCquery: conection failure

#626 IvanEllson closed 6 months ago
0
Fixed a typo in query.Rmd

#625 fabianjkrueger closed 7 months ago
0
BRAF V600E mutation why turn into V640E mutaion in TCGA COAD cohort?

#624 LULUCHIU opened 8 months ago
3
Project specific error in GDCprepare()

#623 DijkJel closed 8 months ago
2
Clinical data for CTSP_DLBCL1 does not work

#622 akauko opened 8 months ago
0
TCGA

#621 BioinfoMug closed 7 months ago
0
Why is there no proteomic data available in the CPTAC project?

#620 CN-Geminghui opened 8 months ago
0
Potential Bug: GDC Prepare does not work for breast cancer data

#619 fabianjkrueger opened 9 months ago
1
GDCdownload error: 'No such file or directory'

#618 Mincana-Huang opened 9 months ago
1
BRCA

#617 BioinfoMug closed 9 months ago
0
No clinical data added to TARGET-NBL

#616 AndriesDeKoker opened 10 months ago
4
Mabye a bug in TCGAanalyze_SurvivalKM

#615 fw1121 opened 10 months ago
6
How to Move the Legend in TCGAanalyze_SurvivalKM

#614 sjroth opened 10 months ago
0
Error in GDCquery_clinic(project ="TCGA-TGCT")

#613 ayueme closed 2 months ago
2
Test suite issue on armel, armhf and ppc64el architecture

#612 tillea opened 11 months ago
1
CPTAC-3 GDCPrepare with scRNA-seq data

#611 LeaLe88 opened 1 year ago
1
CPTAC-3 GDCprepare not working for Methylation Beta Values

#610 ollemonrasl closed 12 months ago
3
Encountered an error while retrieving TCGA Simple Nucleotide Variation data using GDCprepare

#609 AlexanderXie98 closed 1 year ago
5
Problem for merging two summarizedExperiments objects

#608 NicoTaj opened 1 year ago
0
I couldn't find all the files from the query. Please check if the directory parameter is right or `GDCdownload` downloaded the samples.

#607 lijiaze0331 closed 1 year ago
1
GDCprepare not working on Mac OS Sonoma

#606 maxm-4 opened 1 year ago
1
different sample size between TCGA portal and TCGAbiolinks package

#605 tyasird opened 1 year ago
4
Timeout was reached: [api.gdc.cancer.gov]

#604 mansi-aggarwal-2504 closed 1 year ago
3
Prepare for upcoming Seurat v5 release

#603 Gesmira opened 1 year ago
1
Tumor.purity Source link not working

#602 richardheery opened 1 year ago
1
Cannot connect to ExperimentHub server

#601 bailey28 opened 1 year ago
0
GDCquery with legacy=TRUE results in unused argument error

#600 JuliusDeynet closed 1 year ago
2
Glioma classifier

#599 johnnyshkwan closed 1 year ago
10
GDCprepare not downloading clinical data anymore

#598 CianMurphy opened 1 year ago
0
GDCquery_clinic ERROR

#597 42kuroniko closed 1 year ago
4
how to download the transcript-level not the gene-level data from TCGA or CPTAC?

#596 zihaoxingstudy1 opened 1 year ago
0
getProjectSummary() missing

#595 idmehta opened 1 year ago
1
Different clinical results when using GDCprepare_clinic (clinical.info = "patient" vs "follow_up")

#594 buzhizhang121 opened 1 year ago
1
How do I find information on papers in colData

#593 barbarashih opened 1 year ago
0
docker image for nextflow pipeline

#592 rbtoscan opened 1 year ago
1
a way to merge mutation data to gene expression data?

#591 14109022 closed 1 year ago
2
TCGAbiolinks：rror in GDCquery(project = project, data.category = "Clinical", file.type = "xml")

#590 woshizlui opened 1 year ago
1
Which genes are in each GO termn

#589 Jomagrax opened 1 year ago
2
Want to add Site of resection or biopsy in the category Metastatic

#588 Pravithaks opened 1 year ago
0
[BUG] Error downloading CPTAC-3 SNV data

#587 cbravo93 opened 1 year ago
1