Showing : gdc • reset
0
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722
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GenomicDataCommons: Retrieve patient data for RPPA samples
TCGA GenomicDataCommons GDC
written 16 months ago by ▴ 510
3
votes
2
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2.4k
views
Difference in TCGA RNAseq expression values between GDC harmonized and legacy data
GDC TCGA tcgabiolinks
updated 2.6 years ago by • 0 • written 6.0 years ago by ▴ 10
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0
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1.2k
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Filter TCGAbiolinks by Gene in Query
tcgabiolinks filtering gdc TCGABiolinks rnaseq
4.8 years ago jam526 • 0
0
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0
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836
views
Problem for downloading TCGA cancer data by TCGAbiolinks
TCGAbiolinks GDC TCGA
4.9 years ago modarzi ▴ 10
0
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4
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1.4k
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problem for downloading TCGA data by TCGAbiolikns package
TCGAbiolinks TCGA GDC
4.9 years ago modarzi ▴ 10
1
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2
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1.5k
views
TCGA MAF (Mutations) data
TCGA MAF GDC snp mutations
updated 5.5 years ago by 21k • written 5.5 years ago by ▴ 160
4
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2
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1.3k
views
GenomicDataCommons request timeouts when cases() %>% ... %>% results_all()
genomicdatacommons tcga gdc rest http
updated 5.8 years ago by 21k • written 5.8 years ago by ▴ 20
7
votes
7
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1.8k
views
Using GenomicDataCommons R package to identify cases with both DNA methylation and gene expression data
R gdc rna-seq dna methylation
updated 6.0 years ago by 21k • written 6.0 years ago by ▴ 50
19
votes
8
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3.7k
views
How to check the read length for all the TCGA data samples in GDC?
gdc tcga wes gdc data
updated 6.6 years ago by 21k • written 6.6 years ago by ▴ 120
0
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1
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3.3k
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how to infer missing PAM50 molecular subtypes in TCGA-BRCA dataset downloaded with TCGABiolinks?
tcgabiolinks tcga-brca gdc pam50 rna-seq
6.6 years ago pfrancislyon • 0
0
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2
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4.0k
views
Extract gene expression values from GDCprepare object
tcgabiolinks tcga tcgadownload gdcprepare gdc
updated 7.6 years ago by ▴ 260 • written 7.8 years ago by • 0
0
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11
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3.5k
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TCGAbiolinks GDCquery downloads a file that reads "message": "internal server error"
tcgabiolinks gdc
8.0 years ago jshelton • 0
12 results • Page 1 of 1
Recent ...
Replies
Comment: Problem at champ.load by icecreamlover • 0
Hello! Were you able to figure this out? I am running into the same error!
Comment: ChAMP - obtaining beta values using EPICv2 annotation by icecreamlover • 0
Hello, Were you able to fix the error? I used the same document and I am running into the same error. I am curious if you have any feedba…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
Can this please be revisited and corrected ASAP? I'm encountering the same issue, using a slightly more modern version of R (4.1.0). It s…
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by Adam Marstrand • 0
Thank you!
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by Adam Marstrand • 0
Hi Gordon, Thanks for the answer! This makes a lot of sense. Your suggested pipeline (separate processing of datasets -> gene set analyses…
Votes
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
Answer: Combining RNAseq and microarray data using edgeR/limma-voom
Answer: How do I merge a list of GRanges?
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