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TCGAbiolinks
TCGAbiolinks
http://bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/index.html
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Fix clinical parsing if no follow up information if found
#583
tiagochst
closed
1 year ago
0
Devel
#582
tiagochst
closed
1 year ago
0
how to get the DFS(Disease-Free Survival), PFS survival data from TCGA clinical data?
#581
ZihaoXingUP
opened
1 year ago
2
GDCprepare: Error in if (query$data.type == "Masked Intensities" | query$data.category == : missing value where TRUE/FALSE needed
#580
OlegsBorodins
closed
1 year ago
3
normalising RNA seq data
#579
ardalby
opened
1 year ago
0
GDCdownload : cannot create file reason 'No such file or directory'
#578
JRAnalytics
closed
1 year ago
5
GDCquery Error in Opening Connection
#577
KKen357252
closed
1 year ago
6
GDCquery, copy number variation error
#576
sanazmo
closed
1 year ago
4
A problem to manual
#575
cx-333
closed
1 year ago
11
funs() depracated in dplyr 0.8.0
#574
ghost
opened
1 year ago
1
CPTAC-3 GDCprepare error. missing sample.submitter_id
#573
fkgruber
opened
1 year ago
7
TARGET-AML GDCprepare issue
#572
Nshriwash
opened
1 year ago
0
Inconsistent vital_status on TCGA-PAAD
#571
fkgruber
closed
1 year ago
7
Error in "matchedMetExp" when legacy=FALSE
#570
manwarA
closed
1 year ago
1
Error with GDCquery for CPTAC-3
#569
SuiYinG2000
closed
1 year ago
1
TCGAbiolinksGUI does not work in R>4.2
#568
fkgruber
closed
1 year ago
1
No upregulated genes in TCGAvisualize_starburst plot and empty csv
#567
genomics-kl
opened
1 year ago
0
error with GDCdownload function
#566
pratyusha-code
opened
1 year ago
1
Error with GDCdownload using client method
#565
james-e-barrett
opened
1 year ago
0
Timeout of 60 seconds was reached while using GDCquery.
#564
pratyusha-code
opened
1 year ago
0
funs() deprecated in newer dplyr versions
#563
Eomesodermin
opened
1 year ago
2
How do we identify the batch informations from the sample ID?
#562
snijesh
opened
1 year ago
1
How to get batch details of tcga samples using batch.info?
#561
snijesh
opened
1 year ago
0
Rstudio - Error: could not find function "GDCquery"
#560
KatGia
closed
1 year ago
1
Gene level copy number doesn't match GDC website
#559
ytakemon
opened
1 year ago
0
Is this data always in sync with the GDC TCGA official website
#558
asmlgkj
closed
1 year ago
1
GDCprepare() returns Error in function (classes, fdef, mtable) Methylation percentage
#557
CamilleWangermez
opened
1 year ago
0
How to deal with the duplicated samples in TARGET-AML?
#556
xiaolan552
opened
1 year ago
0
Error in GDCdownload() for TCGA-OV project
#555
seedvestige
opened
1 year ago
0
how do I turn the complex heatmap from TCGAvisualize_oncoprint into a ggplot object that I can download?
#554
csmatyi
opened
1 year ago
0
TCGAvisualize_SurvivalCoxNET Gives Error even with test data.
#553
madhu-coder
opened
1 year ago
0
just question, compared pancanatlas publication with TCGAbiolink clinical data
#552
seoyoungLee646466464646644
opened
1 year ago
0
Timeout was reached
#551
dBenedek
opened
1 year ago
0
GCD query Error
#550
Pmgranjo
opened
1 year ago
5
GDCquery error
#549
lizakulaeva
opened
1 year ago
0
Issue with GDCprepare
#548
Lattesnow
closed
1 year ago
2
how to get the sequencing platform information
#547
aiwa1986
opened
1 year ago
2
GDCprepare_clinic bug
#546
todaroroad
opened
1 year ago
3
Why the output file(dd_normalized_counts-filtered_ordered_clinifile) has only the one sample type even I mentioned two in the analysis?
#545
Pravithaks
opened
1 year ago
0
Vignettes are outdated?
#544
tetomonti
closed
1 year ago
2
How to download the TCGA data based on m0 and prior malignancy?
#543
Pravithaks
opened
1 year ago
2
Error with TCGAanalyze_DEA
#542
sagarutturkar
opened
1 year ago
1
Error in `levels<-`(`*tmp*`, value = as.character(levels)) : factor level [43] is duplicated
#541
Pravithaks
opened
1 year ago
2
Error in TCGAanalyze_DEA with limma
#540
ElizabethCattaneo
opened
1 year ago
1
simpleWarning in file.create(to[okay])
#539
RunzhiZ
opened
1 year ago
3
Missing design matrix in TCGAbatch_Correction for unpublished data
#538
mona-n
opened
1 year ago
0
arguments imply differing number of rows: GDCquery_clinic
#537
aysenuroner
opened
1 year ago
3
lack of filtering for Inf values in TCGABiolinks_Normalization() leads to loss of genes
#536
albptt
opened
1 year ago
1
Error when I run the codes from tutorial
#535
RunzhiZ
closed
1 year ago
2
Download stopping due to tar-file issue
#534
ChrisAi89
opened
1 year ago
4
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