User: thomas.derrien

Reputation:
0
Status:
New User
Last seen:
4 days, 7 hours ago
Joined:
1 month ago
Email:
t*************@univ-rennes1.fr

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

This helps us discourage the inappropriate use of our site.

Posts by thomas.derrien

<prev • 6 results • page 1 of 1 • next >
0
votes
1
answer
123
views
1
answers
Comment: C: DEseq2 : Difference between results and plotCounts
... Thank you Michael for the great help! I'm afraid it will be difficult to design a new experiment at this point, thus, I might just see only 2 alternatives: 1/ Factorize the **Keratinocytes** covariate in *n* classes (n>2) with `cut` (e.g. n=3): coldata_final$kerQuant <- cut( ...
written 4 weeks ago by thomas.derrien0
0
votes
1
answer
123
views
1
answers
Comment: C: DEseq2 : Difference between results and plotCounts
... Sure, Michael! Thanks for your help! Here is the whole code including design: ddsMF<- DESeqDataSetFromMatrix(countData = dat.m, colData = coldata_final, + design = ~ sexe + Keratinocytes + breed + condition) converting counts to integer mode > ddsMF <- DESeq(ddsMF) ...
written 4 weeks ago by thomas.derrien0
0
votes
1
answer
123
views
1
answers
Comment: C: DEseq2 : Difference between results and plotCounts
... Since these are canine samples affected by melanomas, I'm using a multifactor design where I controlled for 3 covariates: - gender/sex : factorial with M/F/NotDefined , - breed of the dog : factorial with LABR/GRET/PODL, - keratinocyte : continuous variable which estimates the % of this cell t ...
written 4 weeks ago by thomas.derrien0
0
votes
1
answer
123
views
1
answers
Comment: C: DEseq2 : Difference between results and plotCounts
... Here it is: > assays(ddsMF)[["mu"]]["RLOC_00033176",] H01_GRET H01_LABR H02_GRET H02_PODL H03_GRET H03_PODL H04_PODL H06_GRET H06_PODL H07_PODL H08_PODL H09_PODL H12_PODL T01_GRET T01_LABR T01_PODL T02_GRET T02_LABR ...
written 4 weeks ago by thomas.derrien0
0
votes
1
answer
123
views
1
answers
Comment: C: DEseq2 : Difference between
... Hi Michael, Thank you for your reply and sorry for the mistake, I did the wrong copy/paste... I've edited the example with the correct gene `RLOC_00033176`. ...
written 4 weeks ago by thomas.derrien0
1
vote
1
answer
123
views
1
answer
DEseq2 : Difference between results and plotCounts
... Hi all, First post here :-) I'm analyzing Differentially Expressed Genes (DEG) in 2 conditions (H = Healthy vs T = Tumor) using DEseq2 (version `DESeq2_1.22.2`). When checking/visualising significant DEG with the `plotCounts` function, I came across one gene with a weird behavior. The gene, call ...
deseq2 written 4 weeks ago by thomas.derrien0

Latest awards to thomas.derrien

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: 273 users visited in the last hour