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DESeq2
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2
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48
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DESeq2 - dispersion estimation when there is none
DESeq2
15 hours ago • updated 17 minutes ago
WardDeb
• 0
0
votes
1
reply
76
views
rlog transformation
DESeq2
updated 4 days ago by
Michael Love
41k • written 4 days ago by
ishij9717
• 0
0
votes
1
reply
73
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 4 days ago by
Michael Love
41k • written 4 days ago by
09191919
• 0
0
votes
1
reply
84
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
updated 4 days ago by
Michael Love
41k • written 5 days ago by
ussarizona
• 0
0
votes
1
reply
99
views
covariate with negative and positive values
DESeq2
updated 4 days ago by
Michael Love
41k • written 6 days ago by
Brynn
• 0
0
votes
1
reply
105
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 4 days ago by
ATpoint
★ 4.0k • written 5 days ago by
quanah.hudson
• 0
0
votes
4
replies
177
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
5 days ago • updated 3 days ago
lonn
• 0
0
votes
3
replies
167
views
Interaction Terms in DESeq2 - Shrinkage
DESeq2
updated 6 days ago by
Michael Love
41k • written 7 days ago by
andrebolerbarros
▴ 20
1
vote
2
replies
214
views
How to retrieve detailed regression results from deseq2
DESeq2
12 days ago • updated 3 days ago
Weiqian
▴ 10
0
votes
4
replies
223
views
DEG with low counts
DESeq2
updated 3 days ago by
Michael Love
41k • written 8 days ago by
Rajat
• 0
0
votes
7
replies
382
views
DESeq filtering specific to contrasts
DESeq2
updated 3 days ago by
Michael Love
41k • written 9 weeks ago by
Emma
• 0
0
votes
4
replies
562
views
How to correct for known and surrogate variables in DESeq2?
DESeq2
BatchEffect
sva
limma
updated 6 days ago by
Michael Love
41k • written 6 months ago by
Crystal571
• 0
2
votes
5
replies
1.1k
views
DESeq2 remove batch effect
BatchEffect
RNASeqData
WGCNA
DESeq2
updated 5 days ago by
Ashley
• 0 • written 10 months ago by
zxc741xb
• 0
5
votes
14
replies
2.2k
views
DESeq2 a lot of genes showing up as differentially expressed that only have 1 sample with any expression
deseq2
updated 3 days ago by
Seyram M.
• 0 • written 4.6 years ago by
hsbio
▴ 10
2
votes
5
replies
692
views
DESeq2 setting significant p-value
DESeq2
updated 3 days ago by
Michael Love
41k • written 5.0 years ago by
Merlin
▴ 10
9
votes
12
replies
7.8k
views
Multi factor design edgeR/Deseq2
deseq2
edgeR
rna-seq
updated 4 days ago by
Elizabeth
• 0 • written 8.8 years ago by
gthm
▴ 30
16 results • Page
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Comment: DESeq2 - dispersion estimation when there is none
by
WardDeb
• 0
Thank you for the pointers, I'll revert back again to the method section of the paper. As for the negative relationship of the estimated di…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function
by
Gayatri
• 0
Hello James, How to generate the db? By running the makeOrgPackageFromNCBI() command? I have tried doing that, first by just deleting the …
Answer: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
Tim Peters
▴ 170
Hi Jose and Russ, Apologies to Jose for not seeing this earlier. Sometimes the loess smoother in the bottom panel will throw this error …
Comment: Trying to use enrichGO
by
fernanda.backsouza
• 0
Sure, I changed it but still NULL G0 <- enrichGO( gene = ortologos_filtrados$Gene.ID, OrgDb = org.Cs.eg.db, keyType = "ENTREZID",…
Answer: limma-voom: Calculate the log-fold change in gene expression within a sample
by
Gordon Smyth
50k
No, you cannot use residuals to compute logFCs. From the information you give, I guess that you need to add individual-specific condition …
Votes
Answer: DESeq2 - dispersion estimation when there is none
Comment: Cannabis and KEGGgraph
Comment: Cannabis and KEGGgraph
Answer: Cannabis and KEGGgraph
Answer: Differentially expressed genes in monocle pseudotime
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