updated 6.2 years ago by
huangtao334334
▴
10
•
written 6.2 years ago by
ansari.sarabio
•
0
2
votes
5
replies
1.5k
views
0
votes
1
reply
877
views
updated 6.6 years ago by
Tiago Chedraoui Silva
▴
260
•
written 6.6 years ago by
dvortsov
•
0
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, 1 minute ago
UPF, Barcelona, Spain, 1 minute ago
United Kingdom, 2 minutes ago
United States, 4 minutes ago
Italy, 5 minutes ago
United States, 1 minute ago
UPF, Barcelona, Spain, 1 minute ago
United Kingdom, 2 minutes ago
United States, 4 minutes ago
Italy, 5 minutes ago
Traffic: 952 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