updated 5 days ago by
Gordon Smyth
53k
•
written 24 days ago by
richardallenfriedmanbrooklyn
▴
30
2
votes
8
replies
419
views
Recent ...
Replies
Answer: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg?
by
Michael Love
43k
I'm not familiar with this usage, or code here
```
normFactors <- exp(-1 * offst(set2))
```
In the RNA-seq gene-level workflow, we …
Answer: Which of apeglm and ashr may be more appropriate for pseudobulked DESeq2 analysi
by
Michael Love
43k
> apeglm appears much more aggressive in shrinkage, pushing many genes toward logFC = 0
> ashr maintains a gradient of shrinkage val…
Comment: voomLmFit fitted log-CPM values
by
Gordon Smyth
53k
The fitted values are on the log2CPM scale. I would have told you if they were not!
I think you may be getting confused by the differences…
Comment: voomLmFit fitted log-CPM values
by
Lina
▴
10
Is the output from fitted(v) in the log2 CPM scale? or CPM scale?
Answer: voomLmFit fitted log-CPM values
by
Gordon Smyth
53k
Fitted values are obtained from limma MArrayLM objects by
```
fitted(v)
```
Votes
Awards
• All
Popular Question to
Nik dAK
▴
10
Popular Question to
Michael
•
0
Popular Question to
sum31278
•
0
Popular Question to
Gordon Smyth
53k
Popular Question to
boczniak767
▴
740
Locations
• All
Germany, just now
Pittsburgh, United States, 4 minutes ago
Nigeria, 20 minutes ago
United Kingdom, 1 hour ago
United States, 2 hours ago
Germany, just now
Pittsburgh, United States, 4 minutes ago
Nigeria, 20 minutes ago
United Kingdom, 1 hour ago
United States, 2 hours ago
Traffic: 636 users visited in the last hour
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by the
version 2.3.6
version 2.3.6