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DEseq2
•
reset
9
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12
replies
7.7k
views
Multi factor design edgeR/Deseq2
deseq2
edgeR
rna-seq
updated 11 hours ago by
Elizabeth
• 0 • written 8.8 years ago by
gthm
▴ 30
5
votes
12
replies
2.1k
views
DESeq2 a lot of genes showing up as differentially expressed that only have 1 sample with any expression
deseq2
updated 2 days ago by
Seyram M.
• 0 • written 4.6 years ago by
hsbio
▴ 10
2
votes
5
replies
1.1k
views
DESeq2 remove batch effect
BatchEffect
RNASeqData
WGCNA
DESeq2
updated 1 day ago by
Ashley
• 0 • written 10 months ago by
zxc741xb
• 0
0
votes
4
replies
552
views
How to correct for known and surrogate variables in DESeq2?
DESeq2
BatchEffect
sva
limma
updated 2 days ago by
Michael Love
41k • written 5 months ago by
Crystal571
• 0
2
votes
3
replies
633
views
DESeq2 setting significant p-value
DESeq2
updated 12 hours ago by
Michael Love
41k • written 5.0 years ago by
Merlin
▴ 10
0
votes
3
replies
137
views
Interaction Terms in DESeq2 - Shrinkage
DESeq2
updated 2 days ago by
Michael Love
41k • written 3 days ago by
andrebolerbarros
▴ 20
0
votes
3
replies
169
views
DEG with low counts
DESeq2
4 days ago • updated 2 days ago
Rajat
• 0
1
vote
2
replies
149
views
Design Matrix within group comparison more than two groups
DESeq2
6 days ago • updated 5 days ago
hemantcnaik
• 0
0
votes
2
replies
271
views
DESeq filtering specific to contrasts
DESeq2
updated 16 hours ago by
Carlin95
• 0 • written 9 weeks ago by
Emma
• 0
0
votes
1
reply
49
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
updated 7 hours ago by
ATpoint
★ 4.0k • written 1 day ago by
lonn
• 0
0
votes
1
reply
92
views
Deseq2 Rlog transformation
DESeq2
updated 3 days ago by
ATpoint
★ 4.0k • written 4 days ago by
Sahar
• 0
1
vote
1
reply
158
views
How to retrieve detailed regression results from deseq2
DESeq2
updated 3 days ago by
Michael Love
41k • written 8 days ago by
Weiqian
▴ 10
0
votes
1
reply
69
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 13 hours ago by
ATpoint
★ 4.0k • written 1 day ago by
quanah.hudson
• 0
0
votes
1
reply
66
views
covariate with negative and positive values
DESeq2
updated 10 hours ago by
Michael Love
41k • written 2 days ago by
Brynn
• 0
0
votes
1
reply
47
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
updated 10 hours ago by
Michael Love
41k • written 1 day ago by
ussarizona
• 0
0
votes
1
reply
35
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 10 hours ago by
Michael Love
41k • written 16 hours ago by
09191919
• 0
0
votes
1
reply
38
views
rlog transformation
DESeq2
updated 10 hours ago by
Michael Love
41k • written 15 hours ago by
ishij9717
• 0
0
votes
1
reply
106
views
Bioinformatics student
Des
DESeq2
updated 6 days ago by
hemantcnaik
• 0 • written 6 days ago by
Sahar
• 0
18 results • Page
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Guido Hooiveld
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I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
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• 0
Thanks Peter!
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sropri
• 0
Thank you!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
alserg
▴ 240
They are reorder in the decreasing order.
Comment: significant difference of p-values with dream() after updating VariancePartition
by
Le
• 0
Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…
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