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LIMMA
•
reset
15
votes
23
replies
2.0k
views
The difference when using Limma compare between 3 conditions vs 2 conditions
limma
5 weeks ago • updated 7 days ago
Chris
• 0
14
votes
17
replies
1.2k
views
Why p value inconsistent when using different number of pathway score?
limma
17 days ago • updated 6 days ago
Chris
• 0
5
votes
9
replies
934
views
Light difference when using coef vs omit a group when compare 3 groups.
limma
27 days ago • updated 20 days ago
Chris
• 0
5
votes
8
replies
8.8k
views
Limma design with continuous and categorical covariates
limma
batch effect
covariates
microarray
updated 15 days ago by
hortense96
• 0 • written 7.7 years ago by
dmcleanuk
▴ 30
5
votes
9
replies
1.3k
views
Batch correction and repeated measures
RUVSeq
sva
limma
updated 20 days ago by
Gordon Smyth
50k • written 7 months ago by
Jonathan
▴ 10
3
votes
4
replies
222
views
Help with error using camera() in limma
CAMERA
limma
7 days ago
Chris
• 0
3
votes
1
reply
1.5k
views
Limma without eBayes, is it indistunguishable from Ordinary Least Square?
Limma
ebayes
bayesian
ls
updated 10 hours ago by
Gordon Smyth
50k • written 5.6 years ago by
CantExitVIM
▴ 10
3
votes
1
reply
180
views
Log-cpm values from limma
limma
edgeR
RNASeq
updated 19 days ago by
Gordon Smyth
50k • written 20 days ago by
Shaimaa Gamal
• 0
2
votes
6
replies
410
views
How to make boxplot with pairwise and overall p value from Limma
t.test
boxplot
limma
anova
29 days ago
Chris
• 0
2
votes
2
replies
1.1k
views
limma for gene expression analysis with big and unbalanced sample size
limma
microarray
statistics
updated 7 days ago by
XW
• 0 • written 7.9 years ago by
tati6406
• 0
1
vote
6
replies
119
views
Extremely small p-values using Limma for proteomic data
Proteomics
limma
updated 5 hours ago by
Robert Castelo
★ 3.3k • written 22 hours ago by
Abbey
• 0
1
vote
1
reply
77
views
error in limma , contrast.matrix Number of rows of contrast matrix must match number of coefficients in fit
limma
updated 20 hours ago by
James W. MacDonald
65k • written 21 hours ago by
zzrammal
• 0
1
vote
3
replies
352
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 23 days ago by
Gordon Smyth
50k • written 28 days ago by
Simran
• 0
1
vote
2
replies
341
views
limma Intercept vs No-intercept models completely changing DMR results?
limma
DMRcate
MethylationArray
EPICV2
updated 4 days ago by
Gordon Smyth
50k • written 4 days ago by
Kim
• 0
0
votes
4
replies
603
views
How to correct for known and surrogate variables in DESeq2?
DESeq2
BatchEffect
sva
limma
updated 21 days ago by
Michael Love
42k • written 6 months ago by
Crystal571
• 0
0
votes
1
reply
110
views
Gene-by-sample covariates in limma
Metabolomics
limma
updated 5 days ago by
Gordon Smyth
50k • written 5 days ago by
c53aba27
• 0
0
votes
2
replies
215
views
RNAseq:Technical replicates from different batches
technicalReplicates
BatchEffect
limma
RNASeq
18 days ago • updated 16 days ago
catv
• 0
0
votes
3
replies
1.5k
views
Limma, eBayes different sample size of groups and adjustment
limma
limma
updated 7 days ago by
XW
• 0 • written 13.0 years ago by
Babara Mueller
▴ 10
0
votes
2
replies
172
views
limma-voom: Calculate the log-fold change in gene expression within a sample
limma
RNASeq
voom
written 15 days ago by
taur.vil
• 0
0
votes
7
replies
325
views
Methylation Analysis experiment design using Limma
DNAMethylation
limma
methylationArrayAnalysis
21 days ago • updated 15 days ago
hortense96
• 0
0
votes
3
replies
247
views
Assist me in determining whether the analysis process using the limma package has been executed correctly.
GEOquery
ArrayExpress
limma
DifferentialExpression
updated 7 days ago by
James W. MacDonald
65k • written 8 days ago by
SSSJec
• 0
21 results • Page
1 of 1
Recent ...
Replies
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Mike Smith
★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
Comment: deseq2 results
by
ATpoint
★ 4.1k
> the results are not satisfactory to me Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…
Comment: Extremely small p-values using Limma for proteomic data
by
ATpoint
★ 4.1k
It's not an implementation problem I am discussing (it's trivial obviously) -- more that for most purposes the y-axis metric should be the …
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
Answer: Cannot connect to ExperimentHub server
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DevelopingHippo
• 0
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Robert Castelo
★ 3.3k
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to
Gyan Prakash Mishra
▴ 10
Popular Question
to
Gordon Smyth
50k
Popular Question
to
WouterDeCoster
▴ 130
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