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minfidataepic
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Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi
minfiDataEPIC
6 weeks ago
Felix
• 0
0
votes
1
reply
295
views
Error in reading my csv file in minfi
minfiDataEPIC
minfi
updated 5 months ago by
Basti
▴ 780 • written 5 months ago by
Ana
• 0
0
votes
1
reply
440
views
Create design matrix for differential methylation analysis
Annotation
annotate
DifferentialMethylation
minfiDataEPIC
updated 7 months ago by
Basti
▴ 780 • written 7 months ago by
titangerd
• 0
0
votes
6
replies
1.5k
views
annotation EpicV2
minfiDataEPIC
EpicV2
updated 7 months ago by
Zuguang Gu
▴ 260 • written 8 months ago by
Izabela.ams
• 0
0
votes
1
reply
383
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC
minfi
updated 8 months ago by
James W. MacDonald
65k • written 8 months ago by
phelankj
• 0
0
votes
1
reply
2.4k
views
Warning messages in detecting P-values
minfiDataEPIC
methylationArrayAnalysis
updated 9 months ago by
ATpoint
★ 4.0k • written 9 months ago by
rae.alshammari
▴ 10
0
votes
1
reply
533
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis
minfi
MethylationArrayData
minfiDataEPIC
MethylationArray
updated 12 months ago by
Gordon Smyth
50k • written 13 months ago by
Grace
• 0
0
votes
1
reply
916
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile
noob
Normalization
minfi
minfiDataEPIC
updated 20 months ago by
James W. MacDonald
65k • written 20 months ago by
mikat
• 0
0
votes
1
reply
872
views
EPIC ARRAY ANALYSIS
minfiDataEPIC
#SexPrediction
minfi
updated 2.6 years ago by
Basti
▴ 780 • written 2.6 years ago by
nucasa
• 0
0
votes
1
reply
2.0k
views
plotSex error message
minfiData
plotsex
minfi
minfiDataEPIC
r
updated 3.2 years ago by
suman
• 0 • written 3.2 years ago by
Bethan
• 0
0
votes
2
replies
1.7k
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
11 results • Page
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Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough? Thank …
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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