User: cmfield

gravatar for cmfield
cmfield0
Reputation:
0
Status:
New User
Last seen:
4 months ago
Joined:
5 months, 3 weeks ago
Email:
f*****@ethz.ch

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by cmfield

<prev • 5 results • page 1 of 1 • next >
0
votes
1
answer
114
views
1
answers
Comment: C: Handling multiple knockout experiments with DESeq2
... Well, to be precise, I'm saying 'genes' when I mean 'countable things' because it's not RNASeq data, which is one of the reasons why I have very low numbers of countable things > 10. I didn't want to complicate the original post but more understand the theory. I have so far constructed sub-tables ...
written 4 months ago by cmfield0
0
votes
1
answer
114
views
1
answers
Comment: C: Handling multiple knockout experiments with DESeq2
... It's approximately the same set in each condition (other than some that go from <10 to >10 in a knockout), of 50-100. ...
written 4 months ago by cmfield0
0
votes
1
answer
114
views
1
answers
Comment: C: Handling multiple knockout experiments with DESeq2
... On the order of 100 I would say, not so many. I suppose another way to look at it is.. is it worth separating the knockouts into different analyses at the cost of less robust size factor estimation? ...
written 4 months ago by cmfield0
3
votes
1
answer
114
views
1
answer
Handling multiple knockout experiments with DESeq2
... This is a sanity-check question about how I ought to correctly use DESeq2 with knockout experiments. If I have two conditions, a control and a knockout, am I correct in putting them into one data set and then later ignoring the specific result for the knocked-out gene? I would guess that should a no ...
deseq2 written 4 months ago by cmfield0 • updated 4 months ago by Michael Love23k
1
vote
1
answer
131
views
1
answer
Do I have too many samples or are some samples causing issues?
... I have RNASeq count data from 42 different conditions, 5 repeats per condition for a total of 210 samples, and approximately 37,000 genes. DESeq freezes up at the estimateDispersions step unless I slice the data down to ~50 samples or so. Is it the case that the calculation time scales up in the ext ...
deseq2 written 5 months ago by cmfield0 • updated 5 months ago by Michael Love23k

Latest awards to cmfield

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 16.09
Traffic: 106 users visited in the last hour