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minfidataepic
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Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi
minfiDataEPIC
21 days ago
Felix
• 0
0
votes
1
reply
250
views
Error in reading my csv file in minfi
minfiDataEPIC
minfi
updated 4 months ago by
Basti
▴ 750 • written 4 months ago by
Ana
• 0
0
votes
1
reply
396
views
Create design matrix for differential methylation analysis
Annotation
annotate
DifferentialMethylation
minfiDataEPIC
updated 6 months ago by
Basti
▴ 750 • written 6 months ago by
titangerd
• 0
0
votes
6
replies
1.3k
views
annotation EpicV2
minfiDataEPIC
EpicV2
updated 6 months ago by
Zuguang Gu
▴ 240 • written 7 months ago by
Izabela.ams
• 0
0
votes
1
reply
346
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC
minfi
updated 7 months ago by
James W. MacDonald
65k • written 7 months ago by
phelankj
• 0
0
votes
1
reply
2.2k
views
Warning messages in detecting P-values
minfiDataEPIC
methylationArrayAnalysis
updated 8 months ago by
ATpoint
★ 4.0k • written 8 months ago by
rae.alshammari
▴ 10
0
votes
1
reply
490
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis
minfi
MethylationArrayData
minfiDataEPIC
MethylationArray
updated 12 months ago by
Gordon Smyth
50k • written 12 months ago by
Grace
• 0
0
votes
1
reply
865
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile
noob
Normalization
minfi
minfiDataEPIC
updated 19 months ago by
James W. MacDonald
65k • written 19 months ago by
mikat
• 0
0
votes
1
reply
846
views
EPIC ARRAY ANALYSIS
minfiDataEPIC
#SexPrediction
minfi
updated 2.5 years ago by
Basti
▴ 750 • written 2.5 years ago by
nucasa
• 0
0
votes
1
reply
1.9k
views
plotSex error message
minfiData
plotsex
minfi
minfiDataEPIC
r
updated 3.1 years ago by
suman
• 0 • written 3.1 years ago by
Bethan
• 0
0
votes
2
replies
1.6k
views
Beyond dmpFinder for methylation analysis, using limma for covariates
minfiDataEPIC
arrays
limma
minfi
Epigenetics
updated 3.4 years ago by
Gordon Smyth
50k • written 3.4 years ago by
Jeff
▴ 20
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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