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gdc
•
reset
0
votes
11
replies
3.2k
views
TCGAbiolinks GDCquery downloads a file that reads "message": "internal server error"
tcgabiolinks
gdc
7.5 years ago
jshelton
• 0
17
votes
8
replies
3.1k
views
How to check the read length for all the TCGA data samples in GDC?
gdc
tcga
wes
gdc data
updated 6.1 years ago by
Sean Davis
21k • written 6.1 years ago by
Biologist
▴ 110
7
votes
7
replies
1.6k
views
Using GenomicDataCommons R package to identify cases with both DNA methylation and gene expression data
R
gdc
rna-seq
dna methylation
updated 5.5 years ago by
Sean Davis
21k • written 5.5 years ago by
RichardJActon
▴ 50
0
votes
4
replies
1.2k
views
problem for downloading TCGA data by TCGAbiolikns package
TCGAbiolinks
TCGA
GDC
4.4 years ago
modarzi
▴ 10
4
votes
2
replies
1.1k
views
GenomicDataCommons request timeouts when cases() %>% ... %>% results_all()
genomicdatacommons
tcga
gdc
rest
http
updated 5.3 years ago by
Sean Davis
21k • written 5.3 years ago by
mk
▴ 20
0
votes
2
replies
3.7k
views
Extract gene expression values from GDCprepare object
tcgabiolinks
tcga
tcgadownload
gdcprepare
gdc
updated 7.1 years ago by
Tiago Chedraoui Silva
▴ 260 • written 7.3 years ago by
enigmargs
• 0
3
votes
2
replies
2.2k
views
Difference in TCGA RNAseq expression values between GDC harmonized and legacy data
GDC
TCGA
tcgabiolinks
updated 2.1 years ago by
cute scientist
• 0 • written 5.5 years ago by
Antonio Ahn
▴ 10
1
vote
2
replies
1.3k
views
TCGA MAF (Mutations) data
TCGA
MAF
GDC
snp
mutations
updated 5.0 years ago by
Sean Davis
21k • written 5.0 years ago by
mario.zanfardino
▴ 160
0
votes
1
reply
3.0k
views
how to infer missing PAM50 molecular subtypes in TCGA-BRCA dataset downloaded with TCGABiolinks?
tcgabiolinks
tcga-brca
gdc
pam50
rna-seq
6.1 years ago
pfrancislyon
• 0
0
votes
1
reply
511
views
GenomicDataCommons: Retrieve patient data for RPPA samples
TCGA
GenomicDataCommons
GDC
written 10 months ago by
António Miguel de Jesus Domingues
▴ 510
0
votes
0
replies
716
views
Problem for downloading TCGA cancer data by TCGAbiolinks
TCGAbiolinks
GDC
TCGA
4.4 years ago
modarzi
▴ 10
0
votes
0
replies
986
views
Filter TCGAbiolinks by Gene in Query
tcgabiolinks
filtering
gdc
TCGABiolinks
rnaseq
4.3 years ago
jam526
• 0
12 results • Page
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Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
gene_bioconductor
▴ 10
Thanks for your thoughtful and detailed comment, Gordon
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I looked into the genomic distributions. Please see the screenshot attatched ![ distrubution for female loci, boot1 and boot2][1] how do …
Answer: How to save the DEXSeq results
by
Michael Love
41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups
by
Robert Castelo
★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways"
by
James W. MacDonald
65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
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Answer: Method to find pathways different between 2 groups
Answer: Method to find pathways different between 2 groups
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
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ATpoint
★ 4.1k
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