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Deseq2
•
reset
9
votes
12
replies
7.8k
views
Multi factor design edgeR/Deseq2
deseq2
edgeR
rna-seq
updated 5 days ago by
Elizabeth
• 0 • written 8.8 years ago by
gthm
▴ 30
6
votes
16
replies
2.2k
views
DESeq2 a lot of genes showing up as differentially expressed that only have 1 sample with any expression
deseq2
updated 6 hours ago by
Michael Love
41k • written 4.6 years ago by
hsbio
▴ 10
2
votes
5
replies
1.1k
views
DESeq2 remove batch effect
BatchEffect
RNASeqData
WGCNA
DESeq2
updated 6 days ago by
Ashley
• 0 • written 10 months ago by
zxc741xb
• 0
2
votes
5
replies
692
views
DESeq2 setting significant p-value
DESeq2
updated 4 days ago by
Michael Love
41k • written 5.0 years ago by
Merlin
▴ 10
0
votes
7
replies
383
views
DESeq filtering specific to contrasts
DESeq2
updated 4 days ago by
Michael Love
41k • written 9 weeks ago by
Emma
• 0
0
votes
4
replies
225
views
DEG with low counts
DESeq2
updated 4 days ago by
Michael Love
41k • written 9 days ago by
Rajat
• 0
1
vote
2
replies
215
views
How to retrieve detailed regression results from deseq2
DESeq2
12 days ago • updated 4 days ago
Weiqian
▴ 10
0
votes
4
replies
181
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
6 days ago • updated 3 days ago
lonn
• 0
3
votes
3
replies
125
views
DESeq2 - dispersion estimation when there is none
DESeq2
updated 6 hours ago by
Michael Love
41k • written 1 day ago by
WardDeb
• 0
0
votes
1
reply
108
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 5 days ago by
ATpoint
★ 4.0k • written 6 days ago by
quanah.hudson
• 0
0
votes
1
reply
103
views
covariate with negative and positive values
DESeq2
updated 5 days ago by
Michael Love
41k • written 6 days ago by
Brynn
• 0
0
votes
1
reply
88
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
updated 5 days ago by
Michael Love
41k • written 6 days ago by
ussarizona
• 0
0
votes
1
reply
82
views
rlog transformation
DESeq2
updated 5 days ago by
Michael Love
41k • written 5 days ago by
ishij9717
• 0
0
votes
1
reply
79
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 5 days ago by
Michael Love
41k • written 5 days ago by
09191919
• 0
0
votes
0
replies
18
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
4 hours ago
Aaliya
• 0
0
votes
0
replies
12
views
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
DESeq2
2 hours ago
i.sudbery
▴ 30
16 results • Page
1 of 1
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Replies
Comment: minfi::read.metharray.exp
by
clacarion
• 0
I think its work with `read.metharray.sheet` ```r > sheet <- read.metharray.sheet("/Users/clarachretienneau/Desktop/clock_epigenetic/PJ120…
Comment: minfi::read.metharray.exp
by
clacarion
• 0
Thank you for your response Basti ! I add all the idat files in a unique folder called "idat" and add it in my path ```r > list.files("…
Answer: List of Deprecated Packages for Bioc3.19
by
shepherl
3.8k
singleCellTK has been fixed and will remain in Bioconductor
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
Yes, I'm working only with genes from terpenoids pathway (14 genes), so I can't use enrichGO? Can you recommend a package or something like…
Comment: Trying to use enrichGO
by
fernanda.backsouza
▴ 10
Your awnser at Cannabis orgDb solve my problems using enrichGO by far. I'm underdegree biotechnology student, and I learning bioinformatic…
Votes
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
Answer: Cannabis OrgDb
DESeq2: How to find out how well the model fits the data?
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Michael Love
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