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DESe
•
reset
0
votes
2
replies
1.3k
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
4.4 years ago
wilfried.guiblet
• 0
2
votes
17
replies
3.7k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 2.8 years ago by
Michael Love
43k • written 2.8 years ago by
Alina
• 0
2
votes
3
replies
1.5k
views
Single sided P-value for DESeq2 Likelihood Ratio Test
DESeq2
DESe
updated 5.0 years ago by
Michael Love
43k • written 5.0 years ago by
glennli
• 0
0
votes
2
replies
998
views
where the gene is overexpressed and down regulated while doing DESeq2 analysis
DESe
DESeq2
updated 4.4 years ago by
Michael Love
43k • written 4.4 years ago by
Dinesh
• 0
1
vote
3
replies
2.2k
views
ERROR: unable to find an inherited method for function ‘dispersions<-’ for signature ‘"DESeqDataSet",
DESeq2
dese
4.1 years ago
aedavids
▴ 20
2
votes
2
replies
994
views
Why is the inclusion of RUVs not reflected in the EDA plots produced from normalised counts extracted from deseq2?
RUVSeq
DESeq2
dese
19 months ago
BioinfGuru
▴ 70
0
votes
1
reply
653
views
collapseReplicates dimension error
DESeq2
Dese
updated 23 months ago by
Michael Love
43k • written 24 months ago by
Léa
• 0
0
votes
5
replies
4.8k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
DESE
DESeq2
updated 3.8 years ago by
Basti
▴ 780 • written 3.8 years ago by
Maryam.sed1400
• 0
0
votes
2
replies
2.5k
views
Handling NA's in Deseq2
Dese
DESeq2
2.8 years ago
Asger Mølgaard
• 0
0
votes
5
replies
1.5k
views
DESeq2 analysis
DESe
DESeq2
2.6 years ago
Adèle
• 0
3
votes
3
replies
1.4k
views
Merging two plated in R
dese
DESeq2
updated 3.8 years ago by
James W. MacDonald
68k • written 3.8 years ago by
lmrogers34
▴ 10
0
votes
2
replies
937
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
2.1 years ago
pl23
• 0
4
votes
5
replies
2.4k
views
Adding cell population estimates as a covariate in DESeq2 differential gene expression analysis
DESeq2
Dese
DifferentialRegulation
differe
updated 21 months ago by
ij283
• 0 • written 2.9 years ago by
Bernardo
▴ 10
0
votes
2
replies
1.2k
views
Linear Model Fitting and Colinearity
dese
DESeq2
2.3 years ago • updated 2.2 years ago
Hugo
• 0
0
votes
2
replies
1.5k
views
Effect of within-group variation on gene expression analysis
DESeq2
updated 5.3 years ago by
Michael Love
43k • written 5.3 years ago by
hpapoli
• 0
0
votes
3
replies
830
views
DESeq2 Results in Different Pvalue & Log2FC using the same code and data
DESeq2
dese
written 2.1 years ago by
Xu
• 0
16 results • Page
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Recent ...
Replies
Answer: Is it still possible to do batch correction for my data?
by
Gordon Smyth
53k
I agree with the comments from James MacDonald, but I will add that if you use the standard linear model correction for batch ``` design <-…
Answer: specifying refColumn in calcNormFactors()
by
Gordon Smyth
53k
Your question is about cross-validation rather than specifically about edgeR. A general principle of cross-validation is that you must norm…
Answer: Sex prediction in sesame for EPICV2
by
Tim Peters
▴ 230
Hi Pooja, There is a tutorial for preprocessing EPICv2 via sesame here: https://clark-lab.github.io/EPICv2_tutorial/. There is no call t…
Comment: Convergence Issues and Model Selection DESeq2
by
dani.guan.3
• 0
Thank you, I appreciate your time and help.
Comment: Convergence Issues and Model Selection DESeq2
by
Michael Love
43k
> out of my 30,229 genes, 795 (2.6%) are better explained ... Not exactly. Frequentist statistics is not symmetric in this way. If it were…
Votes
DiffBind dropping peaks in ATAC-seq data
A: decideTests() options in LIMMA
A: Removing cell cycle genes in large data set integration
A: Removing cell cycle genes in large data set integration
Answer: Quick two questions on limpa
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