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gtex
•
reset
1
vote
3
replies
1.0k
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Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2
recount
GTEx
TCGA
recount3
updated 12 months ago by
ATpoint
★ 4.1k • written 12 months ago by
David
▴ 20
2
votes
2
replies
1.9k
views
Create TPM gene tables/dataframe from ReCount3
recount3
TCGA
GTEx
DESeq2
23 months ago
David
▴ 20
2
votes
2
replies
1.2k
views
Gene Selection GTex for DESeq2 Analysis
DESeq2
GTEx
3.2 years ago
Bine
▴ 40
0
votes
1
reply
3.3k
views
Is GTEx age and sex data available via the recount package?
recount
gtex
updated 5.5 years ago by
Leonardo Collado Torres
★ 1.0k • written 5.5 years ago by
abe
• 0
2
votes
2
replies
1.1k
views
Error in ebayes in limma when analyzing GTEx data
limma
voom
gtex
6.1 years ago
mico
• 0
1
vote
2
replies
1.8k
views
DESeq2 for differential gene expression on GTEx dataset
rnaseq
deseq2
gtex
updated 6.5 years ago by
Michael Love
41k • written 6.5 years ago by
vikram
• 0
2
votes
0
replies
3.9k
views
Tutorial:
BoF Bioc2017: Analyzing publicly available cancer genomics data from GTEx and TCGA with Bioconductor
public data
TCGA
GTEx
Tutorial
6.8 years ago
shepherl
3.9k
7 results • Page
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Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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