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Dese
•
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0
votes
2
replies
858
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DESeq2 ratio of ratios and p-value
DESeq2
dese
2.5 years ago
wilfried.guiblet
• 0
2
votes
17
replies
1.7k
views
lfcshrink error DESeq2
DESeq2
lfcshrink
DESe
updated 12 months ago by
Michael Love
41k • written 12 months ago by
Alina
• 0
2
votes
3
replies
994
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
0
votes
2
replies
628
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
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
1
reply
171
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
968
views
Handling NA's in Deseq2
Dese
DESeq2
11 months ago
Asger Mølgaard
• 0
0
votes
5
replies
814
views
DESeq2 analysis
DESe
DESeq2
9 months ago
Adèle
• 0
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
0
votes
2
replies
266
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
3 months ago
pl23
• 0
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
0
votes
2
replies
409
views
Linear Model Fitting and Colinearity
dese
DESeq2
4 months ago
Hugo
• 0
0
votes
2
replies
769
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
15 results • Page
1 of 1
Recent ...
Replies
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Comment: Help with running egsea()
by
James W. MacDonald
65k
I don't understand the last question, but do look at the msigdb.gsets argument to `buildIdx` in the help page for that function.
Votes
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
Answer: How to save the DEXSeq results
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Michael Love
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Malcolm Cook
★ 1.6k
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