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GDCprepare
•
reset
4
votes
5
replies
2.5k
views
GDCprepare - error
TCGABiolinks
GDCprepare
4.8 years ago
vm
▴ 30
2
votes
2
replies
1.5k
views
TCGAbiolinks GDCprepare error
TCGAbiolinks
GDCprepare
error
updated 4.8 years ago by
Tiago C. Silva
▴ 270 • written 4.8 years ago by
Talip Zengin
▴ 10
1
vote
5
replies
1.6k
views
Issue with TCGAbiolinks package.
TCGA
GDCprepare
5.2 years ago
salvocomplicazioni1
• 0
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 7.2 years ago by
enigmargs
• 0
0
votes
3
replies
1.4k
views
TCGA controlled data
R
tcgabiolinks
gdcprepare
6.9 years ago
ugandhar.ch1
• 0
0
votes
1
reply
1.6k
views
How to get treatment information with TCGAbiolinks?
gdcprepare
tcgabiolinks
treatment_type
R
data extraction
updated 6.8 years ago by
Dario Strbenac
★ 1.5k • written 6.9 years ago by
newbie
• 0
0
votes
0
replies
829
views
Reasoning for illegal operation
tcgabiolinks
illegaloperation
gdcprepare
6.4 years ago
lisa8191
• 0
0
votes
2
replies
1.8k
views
GDCprepare stop working for some unknown reason
tcgabiolinks
gdcprepare
updated 5.4 years ago by
James W. MacDonald
65k • written 5.4 years ago by
ansari.sarabio
• 0
0
votes
0
replies
1.4k
views
GDCprepare error in TCGAbiolinks
tcgabiolinks
gdcprepare
differential expression
4.5 years ago
fawazfebin
▴ 60
0
votes
0
replies
710
views
Error in GDCDownload and GDCPrepare for TCGA-PAAD Dataset
GDCPrepare
GDCDownload
20 months ago
Manav
• 0
0
votes
1
reply
1.2k
views
Error during GDCprepare
tcgabiolinks
gdcprepare
updated 7.6 years ago by
Tiago C. Silva
▴ 270 • written 7.7 years ago by
Mariana Boroni
▴ 10
0
votes
8
replies
2.6k
views
TCGAbiolinks GDCprepare fails to connect to Biomart web server
tcgabiolinks
gdcprepare
7.6 years ago
sabarinath.chandrasekharan
▴ 10
12 results • Page
1 of 1
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Answer: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
swbarnes2
★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error
by
James W. MacDonald
65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Votes
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
C: when to apply quantile normalization with voom in limma/voom framework with RNA-
A: How to know if I should use voomWithQualityWeights() or not?
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