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RNASeqRData
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1
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4
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808
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RNA-seq analysis between a wildtype vs a double microRNA kockout mouse brain
microRNA
gene
RNASeqRData
edgeR
geneontology
18 months ago
faiza
• 0
1
vote
3
replies
674
views
What should I do with RNA-Seq data to get a gene that work?
find
RNASeqRData
updated 18 months ago by
ATpoint
★ 4.1k • written 18 months ago by
yuhang
• 0
1
vote
4
replies
1.4k
views
merge TPM values for same geneID
RNASeqRData
TPM
updated 19 months ago by
ATpoint
★ 4.1k • written 19 months ago by
prashali.bansal
▴ 10
0
votes
0
replies
469
views
how to create PHENO_DATA
RNASeq
RNASeqData
RNASeqRData
20 months ago
marymshahi2021
• 0
0
votes
1
reply
600
views
DeSeq2 timecourse analysis
RNAseqRData
DeSeq2
updated 2.1 years ago by
Michael Love
41k • written 2.1 years ago by
Hannah
• 0
0
votes
17
replies
3.2k
views
results(dds) error: couldn't find results. you should first run DESeq()
RNASeqRData
updated 2.1 years ago by
Michael Love
41k • written 2.2 years ago by
beslinail
• 0
1
vote
1
reply
786
views
edgeR for SDE analysis
RNASeqRData
edgeR
RNASeqR
RNASeqData
updated 2.2 years ago by
Gordon Smyth
50k • written 2.2 years ago by
vikycairoli
• 0
1
vote
2
replies
883
views
Is 100K genes too many to run ComBat_seq on?
RNASeqRData
combat_Seq
BatchEffect
2.6 years ago • updated 2.3 years ago
zeegzaag
• 0
0
votes
1
reply
863
views
Limma Voom Design and Contrast Matrix- Can my parameter also be a factor?
RNASeqRData
limma
RNASeq
RNASeqR
updated 3.1 years ago by
Gordon Smyth
50k • written 3.1 years ago by
Rita
• 0
2
votes
2
replies
2.6k
views
How to download KEGG pathways for list of enriched genes
RNASeqRData
GO
3.2 years ago
Wuschel
▴ 10
0
votes
0
replies
736
views
display .CT files in a BioC package
RNAinteract
rnaseqGene
RNASeqRData
rnaseqcomp
3.2 years ago
Bogdan
▴ 670
4
votes
4
replies
1.1k
views
DEseq2: working with unbalanced number of sample in tumor study?
Deseq2
RNASeqRData
unbalancedsamplesize
updated 23 months ago by
Michael Love
41k • written 3.2 years ago by
Cihat
• 0
1
vote
5
replies
2.1k
views
How can I use bioconductor and Deseq2 in linux ubuntu 18
RiboProfiling
DESeq2
Bioconductor
RNASeqRData
updated 18 months ago by
Kevin Blighe
★ 3.9k • written 3.2 years ago by
Taufiq
• 0
13 results • Page
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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!
Comment: Too many significant genes when integrating gtex and tcga
by
Michael Love
41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
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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