Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
formula
•
reset
8
votes
10
replies
25k
views
Design formula and Design matrix in DESeq
rnaseq
deseq2
formula
Limma
9.0 years ago
AurelieMLB
▴ 50
0
votes
10
replies
2.4k
views
DEseq2 design formula correcting for batch
deseq2
design
formula
batch effect
updated 4.2 years ago by
swbarnes2
★ 1.3k • written 4.2 years ago by
l.rijnberk
• 0
0
votes
8
replies
1.9k
views
Two controls in RNAseq formula for DESeq2
deseq2
formula
controls
design
updated 4.7 years ago by
Michael Love
41k • written 4.7 years ago by
taveluz
• 0
3
votes
8
replies
2.0k
views
Differential drug dosage effect between two genotypes in limma
limma
dose-response
linear model
model
formula
updated 6.4 years ago by
James W. MacDonald
65k • written 6.4 years ago by
biominer
▴ 10
3
votes
7
replies
1.8k
views
DESeq2 design formula: how to account for twin data (MZ and DZ)?
DESeq2
twins
design
formula
RNA-seq
6.5 years ago
Simone
• 0
5
votes
6
replies
2.3k
views
Translating model formula from DESeq to DEXSeq
dexseq
linear model
formula
updated 8.5 years ago by
Alejandro Reyes
★ 1.9k • written 8.5 years ago by
Cornwell, Adam
▴ 110
0
votes
6
replies
1.3k
views
variancePartition - testing for individuals
variance
formula
expression
updated 5.3 years ago by
mikhael.manurung
▴ 270 • written 5.3 years ago by
rina
▴ 30
0
votes
5
replies
1.3k
views
DESeq2 design formula - correlation with ordered variable
DESeq2
design
formula
matrix
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
t.kuilman
▴ 170
0
votes
5
replies
1.6k
views
Limma: how to account for twin data (both MZ and DZ twins)?
limma
design
RNA-seq
formula
twins
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
Simone
• 0
0
votes
1
reply
754
views
DeSeq2 4 different formulas but 4 times the same heatmap...
deseq2
design
formula
updated 3.5 years ago by
Michael Love
41k • written 3.5 years ago by
Bine
▴ 40
0
votes
1
reply
969
views
Batch effects in DESeq2: determination and model building
BatchEffect
batch
RNASeqR
formula
DESeq2
updated 20 months ago by
Michael Love
41k • written 20 months ago by
estafana.t98
• 0
11 results • Page
1 of 1
Recent ...
Replies
Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
Awards
• All
Popular Question
to
Gordon Smyth
50k
Popular Question
to
Zainab
• 0
Popular Question
to
Theo
▴ 10
Popular Question
to
gene_bioconductor
▴ 10
Popular Question
to
rohitsatyam102
▴ 20
Locations
• All
United Kingdom,
32 minutes ago
France,
39 minutes ago
India,
2 hours ago
The city by the bay,
3 hours ago
WEHI, Melbourne, Australia,
5 hours ago
Traffic: 503 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6