updated 2.8 years ago by
Ou, Jianhong
★
1.3k
•
written 2.8 years ago by
tomas.rodriguez
▴
10
3
votes
3
replies
1.2k
views
0
votes
3
replies
2.4k
views
2
votes
1
reply
4.0k
views
updated 8.4 years ago by
florian.hahne@novartis.com
★
1.6k
•
written 8.4 years ago by
Nicolas Rosewick
▴
20
Recent ...
Replies
Comment: Identical samples after deseq2 batch effect removal
by
Michael Love
42k
I'm adding my comment to the threaded section ...
I don't have any suggestions here but whatever method you're using is not appropriate up…
Comment: ANOVA like approach of edgeR
by
Yunshun Chen
▴
880
If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …
Comment: ANOVA like approach of edgeR
by
SamGG
▴
350
Simply remove the cell type from the model.
design <- model.matrix(~targets$Status)
Answer: ANOVA like approach of edgeR
by
Yunshun Chen
▴
880
You could try the followings:
> design <- model.matrix(~ 0 + group)
> contrast <- makeContrasts(PvsL = 0.5*(L.pregnant + B.pregnan…
Answer: Identical samples after deseq2 batch effect removal
by
maripane
•
0
Thanks Michael, so is there a way to work around this issue?
Can I somehow make sure I can remove this batch effects without overcorrecti…
Awards
• All
Popular Question to
Anna
▴
20
Popular Question to
Talip
▴
10
Popular Question to
alexandre.blais
▴
50
Locations
• All
United States, 12 minutes ago
Spain, 16 minutes ago
France, 18 minutes ago
United Kingdom, 23 minutes ago
The Netherlands, 27 minutes ago
United States, 12 minutes ago
Spain, 16 minutes ago
France, 18 minutes ago
United Kingdom, 23 minutes ago
The Netherlands, 27 minutes ago
Traffic: 930 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