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DESE
•
reset
4
votes
4
replies
1.1k
views
Adding cell population estimates as a covariate in DESeq2 differential gene expression analysis
DESeq2
Dese
DifferentialRegulation
differe
updated 7 weeks ago by
feather-W
• 0 • written 13 months ago by
Bernardo
▴ 10
3
votes
3
replies
933
views
Merging two plated in R
dese
DESeq2
updated 23 months ago by
James W. MacDonald
65k • written 23 months ago by
lmrogers34
▴ 10
2
votes
17
replies
1.7k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 11 months ago by
Michael Love
41k • written 12 months ago by
Alina
• 0
2
votes
3
replies
993
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
updated 3.2 years ago by
Michael Love
41k • written 3.2 years ago by
glennli
• 0
1
vote
3
replies
1.4k
views
ERROR: unable to find an inherited method for function ‘dispersions<-’ for signature ‘"DESeqDataSet",
DESeq2
dese
2.3 years ago
aedavids
▴ 20
0
votes
5
replies
810
views
DESeq2 analysis
DESe
DESeq2
9 months ago
Adèle
• 0
0
votes
2
replies
857
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
2.5 years ago
wilfried.guiblet
• 0
0
votes
2
replies
263
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
3 months ago
pl23
• 0
0
votes
2
replies
406
views
Linear Model Fitting and Colinearity
dese
DESeq2
4 months ago
Hugo
• 0
0
votes
2
replies
767
views
Effect of within-group variation on gene expression analysis
DESeq2
updated 3.4 years ago by
Michael Love
41k • written 3.4 years ago by
hpapoli
• 0
0
votes
2
replies
256
views
DESeq2 Results in Different Pvalue & Log2FC using the same code and data
DESeq2
dese
updated 11 weeks ago by
ATpoint
★ 4.1k • written 11 weeks ago by
Xu
• 0
0
votes
2
replies
627
views
where the gene is overexpressed and down regulated while doing DESeq2 analysis
DESe
DESeq2
updated 2.6 years ago by
Michael Love
41k • written 2.6 years ago by
Dinesh
• 0
0
votes
1
reply
169
views
collapseReplicates dimension error
DESeq2
Dese
updated 5 weeks ago by
Michael Love
41k • written 6 weeks ago by
Léa
• 0
0
votes
5
replies
3.4k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
DESE
DESeq2
updated 24 months ago by
Basti
▴ 780 • written 24 months ago by
Maryam.sed1400
• 0
0
votes
2
replies
962
views
Handling NA's in Deseq2
Dese
DESeq2
11 months ago
Asger Mølgaard
• 0
15 results • Page
1 of 1
Recent ...
Replies
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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