User: Emiliano Canton

Reputation:
10
Status:
New User
Location:
University of Florida
Last seen:
1 week ago
Joined:
2 months ago
Email:
p***************@gmail.com

Posts by Emiliano Canton

<prev • 5 results • page 1 of 1 • next >
0
votes
1
answers
115
views
1
answers
Comment: C: DESeq2 for large de novo transcripts assembly
... Thank for all your suggestions, Michael. Dealing with the de novo transcriptomes is always messier than having a reference. In my previous projects I've dealt with more studied organisms, so this dataset has proven a bit trickier to tackle. For the shrinking methods, I'm not sure what you mean. The ...
written 26 days ago by Emiliano Canton10
0
votes
1
answers
115
views
1
answers
Comment: C: DESeq2 for large de novo transcripts assembly
... I will expand a little on my previous replies with graphs, I hope it clears up the situation. I'm running DESeq in the following way: de_results <- DESeq(dds, parallel=TRUE, BPPARAM=MulticoreParam(2))  At first I was using just variations the following code to get the contrasts with the dds ob ...
written 29 days ago by Emiliano Canton10
0
votes
1
answers
115
views
1
answers
Comment: C: DESeq2 for large de novo transcripts assembly
... If I use all 24 samples and compare tissues within treatment, and plot by filtering those with low base mean, there is only a slight right skew, and no peaks besides the one at 0. It looks as expected for the test. It is only when comparing the same tissue between C and B that the distributions skew ...
written 29 days ago by Emiliano Canton10
0
votes
1
answers
115
views
1
answers
Comment: C: DESeq2 for large de novo transcripts assembly
... We are interested in comparing between tissues within one treatment (so, G tissue versus M1, G tissue vs M2, M1 vs M2, etc) and between the same tissue but with different treatment, which is where the dispersions vary. I should note that even when contrasting one M tissue to another within one treat ...
written 4 weeks ago by Emiliano Canton10
1
vote
1
answer
115
views
1
answer
DESeq2 for large de novo transcripts assembly
... I started this question over at Biostars (https://www.biostars.org/p/341052/) , and I did get help and applied some suggestions from the community over there. However, I still have some remaining doubts, and maybe I should have come here first since it seems it is indeed an issue of how I'm using DE ...
deseq2 written 4 weeks ago by Emiliano Canton10 • updated 4 weeks ago by Michael Love20k

Latest awards to Emiliano Canton

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 399 users visited in the last hour