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genes
•
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0
votes
2
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499
views
Deseq2 design
DESeq2
genes
Differential
expressed
12 months ago • updated 11 months ago
Syed Zaheer
▴ 10
0
votes
1
reply
878
views
enrichment to common gene
GeneSetEnrichment
genes
genetogo
updated 23 months ago by
Basti
▴ 780 • written 23 months ago by
Noy
• 0
0
votes
1
reply
607
views
find genes near a microRNA binding site
R
microRNA
genes
binding Site
4.8 years ago
pengu447
• 0
2
votes
4
replies
1.3k
views
Majority upregulated genes in edgeR
edger
differential expression
genes
fold change
updated 4.9 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
ilovesuperheroes1993
• 0
1
vote
2
replies
700
views
Two factors design with DESEq2
deseq2
genes
expression
updated 5.1 years ago by
Michael Love
41k • written 5.1 years ago by
UserAnonyme
• 0
1
vote
1
reply
1.1k
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO
significant
enrichment
genes
IDs
5.3 years ago
David ROUX
▴ 20
0
votes
1
reply
916
views
Running DESeq2 on top variable genes?
deseq2
variance
genes
updated 6.5 years ago by
Michael Love
41k • written 6.5 years ago by
hs.lansdell
▴ 20
2
votes
2
replies
1.1k
views
list fo genes by cnv
cnv
genes
genomic ranges
splitByOverlap
updated 7.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
julrodr80
▴ 30
0
votes
1
reply
701
views
No differentyally expresses genes
deseq2
genes
updated 7.7 years ago by
Michael Love
41k • written 7.8 years ago by
silviajserrano
• 0
0
votes
3
replies
2.6k
views
Wald vs LRT: different number of significant genes when testing the same coefficient
deseq2
wald
lrt
genes
significance
updated 7.9 years ago by
Michael Love
41k • written 7.9 years ago by
aziza
▴ 20
0
votes
1
reply
2.4k
views
Display subset of rownames in large heatmap?
heatmap
rownames
genes
8.6 years ago
johnlee.johnson
• 0
0
votes
2
replies
1.2k
views
Help needed to identify common genes among datasets
datasets
genes
gene expression
updated 8.7 years ago by
Steve Lianoglou
★ 13k • written 8.7 years ago by
vavecilla
• 0
12 results • Page
1 of 1
Recent ...
Replies
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
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…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
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
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