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lmer
•
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2
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12
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1.9k
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limma technical repeat correction
limma
lmer
duplicateCorrelation
technicalrepeats
4 months ago • updated 3 months ago
john
• 0
0
votes
0
replies
551
views
Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer
MAST
DifferentialExpression
7 months ago
nhaus
▴ 70
4
votes
2
replies
1.1k
views
Two-way interaction, linear redundancy
limma
caret
lm
lmer
lme4
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
Sindre
▴ 110
2
votes
6
replies
2.4k
views
Bumphunting for longitudinal data
bumphunter
minfi
lmer
dmrcate
dmr analysis
updated 6.8 years ago by
Tim Peters
▴ 230 • written 6.8 years ago by
Ashlynn
• 0
0
votes
6
replies
3.6k
views
Analyzing pre/post (longitudinal) data using limma/lme4 with adjustment for continuous covariates
illumina450k
limma
lme4
lmer
updated 8.9 years ago by
Aaron Lun
★ 28k • written 8.9 years ago by
DSP
• 0
5 results • Page
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Comment: Use of limma R package with targeted proteomics for DE analysis
by
svlachavas
▴ 840
Dear Gordon, thank you for returning back ! Actually the output is not "NPX"-as indeed it most frequent output for a lot of pannels-but as …
Comment: how many significant figures are there in DESeq2 output
by
ATpoint
★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression
by
Jane
• 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga
by
Jane
• 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output
by
Matthew McCormack
▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Votes
A: What is the "linear model" part used for in Limma?
Comment: Use of limma R package with targeted proteomics for DE analysis
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
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