7.3 years ago
sbpatel2009
•
0
0
votes
1
reply
990
views
Recent ...
Replies
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
Nicholas
•
0
Got it, so using the GTF directly rather than any of the annotation packages will yield more accurate results than any of the packages? I g…
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
James W. MacDonald
67k
I agree that it's difficult to match an `EnsDb` object to the build, but I think that is orthogonal to OP's issue, which is mapping transcr…
Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
by
Quang
▴
10
I see. Thank you for your advice!
In my case per James' suggestions, I redesigned the model to `~ DonorID + Subset + Conditions` as Date_…
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
ATpoint
★
4.6k
> that you should stick with whatever IDs you started with,
Meaning, you got your fasta file for the kallisto index from somewhere, e.g. …
Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
by
Michael Love
43k
Think of two separate paths in DESeq2: 1) visualization/EDA and 2) testing.
For (1) you use vst(), removeBatchEffect(), etc. The design is…
Votes
Awards
• All
Popular Question to
Assa Yeroslaviz
★
1.5k
Popular Question to
nurkenber
•
0
Popular Question to
Dario Strbenac
★
1.5k
Popular Question to
Levi Waldron
★
1.1k
Scholar to
Michael Love
43k
Locations
• All
United States, 2 minutes ago
United States, 6 minutes ago
Germany, 19 minutes ago
United States, 36 minutes ago
United Kingdom, 39 minutes ago
United States, 2 minutes ago
United States, 6 minutes ago
Germany, 19 minutes ago
United States, 36 minutes ago
United Kingdom, 39 minutes ago
Traffic: 1024 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