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Dese
•
reset
2
votes
2
replies
637
views
Why is the inclusion of RUVs not reflected in the EDA plots produced from normalised counts extracted from deseq2?
RUVSeq
DESeq2
dese
8 months ago
BioinfGuru
▴ 70
0
votes
1
reply
443
views
collapseReplicates dimension error
DESeq2
Dese
updated 13 months ago by
Michael Love
43k • written 13 months ago by
Léa
• 0
0
votes
3
replies
614
views
DESeq2 Results in Different Pvalue & Log2FC using the same code and data
DESeq2
dese
written 14 months ago by
Xu
• 0
0
votes
2
replies
627
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
15 months ago • updated 14 months ago
pl23
• 0
0
votes
2
replies
937
views
Linear Model Fitting and Colinearity
dese
DESeq2
16 months ago
Hugo
• 0
0
votes
5
replies
1.2k
views
DESeq2 analysis
DESe
DESeq2
21 months ago
Adèle
• 0
0
votes
2
replies
2.0k
views
Handling NA's in Deseq2
Dese
DESeq2
23 months ago • updated 22 months ago
Asger Mølgaard
• 0
2
votes
17
replies
2.9k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 23 months ago by
Michael Love
43k • written 23 months ago by
Alina
• 0
4
votes
5
replies
2.0k
views
Adding cell population estimates as a covariate in DESeq2 differential gene expression analysis
DESeq2
Dese
DifferentialRegulation
differe
updated 10 months ago by
ij283
• 0 • written 2.0 years ago by
Bernardo
▴ 10
3
votes
3
replies
1.2k
views
Merging two plated in R
dese
DESeq2
updated 2.9 years ago by
James W. MacDonald
68k • written 2.9 years ago by
lmrogers34
▴ 10
0
votes
5
replies
4.3k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
DESE
DESeq2
updated 2.9 years ago by
Basti
▴ 780 • written 3.0 years ago by
Maryam.sed1400
• 0
1
vote
3
replies
1.8k
views
ERROR: unable to find an inherited method for function ‘dispersions<-’ for signature ‘"DESeqDataSet",
DESeq2
dese
3.2 years ago
aedavids
▴ 20
0
votes
2
replies
1.1k
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
3.5 years ago
wilfried.guiblet
• 0
0
votes
2
replies
836
views
where the gene is overexpressed and down regulated while doing DESeq2 analysis
DESe
DESeq2
updated 3.5 years ago by
Michael Love
43k • written 3.5 years ago by
Dinesh
• 0
2
votes
3
replies
1.3k
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
updated 4.1 years ago by
Michael Love
43k • written 4.1 years ago by
glennli
• 0
0
votes
2
replies
1.1k
views
Effect of within-group variation on gene expression analysis
DESeq2
updated 4.4 years ago by
Michael Love
43k • written 4.4 years ago by
hpapoli
• 0
16 results • Page
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Answer: EuroBioC2024 abstract submission is open!
by
Ali
• 0
[Promo products][1] are a smart way to boost visibility, especially with exciting updates like *News: EuroBioC2024 abstract submission is o…
Answer: ROAST for small sets
by
Gordon Smyth
52k
The p-values from `mroast` will be the same (up to sampling variability associated with random rotations) regardless of whether you test al…
Comment: FlowSOM library requires igraph but igraph does not install
by
Szabolcs
• 0
The R/igraph Installation FAQ covers most issues: https://r.igraph.org/articles/installation-troubleshooting.html
Comment: edgeR::cpm() results in negative values from raw counts of 0
by
Kinnary
▴ 20
Thank you very much for the vis suggestion!
Comment: edgeR::cpm() results in negative values from raw counts of 0
by
Kinnary
▴ 20
Thank you very much - I appreciate the mathematical explanation and link to Dr. Phipson's thesis!
Votes
A: conceptual question about FDR, FDR adjusted p-value and q-value
Comment: edgeR::cpm() results in negative values from raw counts of 0
Comment: edgeR::cpm() results in negative values from raw counts of 0
Answer: edgeR::cpm() results in negative values from raw counts of 0
Answer: edgeR::cpm() results in negative values from raw counts of 0
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