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MethylationArray
•
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0
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111
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray
normalize450K
TCGAbiolinks
Normalization
MethylationArrayData
23 days ago • updated 10 days ago
Giovanni Calice
▴ 160
0
votes
11
replies
587
views
Strange logFC values in differential methylation site anslysis
edgeR
MethylationArray
updated 24 days ago by
Gordon Smyth
50k • written 4 weeks ago by
mico
• 0
0
votes
1
reply
179
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation
GO
MethylationArray
missMethyl
EPICv2
updated 24 days ago by
belinda.phipson
▴ 40 • written 24 days ago by
saad.malik
• 0
1
vote
6
replies
382
views
Library size normalization in methylation count analysis
edgeR
MethylationArray
4 weeks ago
mico
• 0
1
vote
0
replies
112
views
Rnaseq sample barcode does not match barcode from TCGA Methylation data
TCGAMethylation450k
MethylationArray
TCGAbiolinks
Tcga
TCGAbiolinksGUI.data
4 weeks ago
BioinfoMug
• 0
1
vote
1
reply
212
views
Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray
methylationArrayAnalysis
ChAMP
updated 5 weeks ago by
James W. MacDonald
65k • written 5 weeks ago by
david.cheishvili
• 0
0
votes
7
replies
351
views
error in reading idat files and creating rgset
minfi
MethylationArray
updated 6 weeks ago by
James W. MacDonald
65k • written 6 weeks ago by
sharangiiv
• 0
1
vote
2
replies
240
views
How to get normalized values for methylation counts in edgeR
edgeR
MethylationArray
7 weeks ago
mico
• 0
1
vote
4
replies
365
views
EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation
MethylationArray
methylationArrayAnalysis
illumina
7 weeks ago
mikat
• 0
2
votes
7
replies
2.3k
views
Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray
methylationArrayAnalysis
ChAMP
updated 5 months ago by
dorota.komar
• 0 • written 3.3 years ago by
Ankit
▴ 20
0
votes
1
reply
642
views
EPIC v2 demo data from blood samples
MethylationArray
methylationArrayAnalysis
updated 5 months ago by
James W. MacDonald
65k • written 5 months ago by
henry-keen
• 0
5
votes
5
replies
727
views
limma output for epic array methylation data
linearregression
epicarray
MethylationArray
limma
7 months ago
Jitendra
▴ 10
1
vote
1
reply
520
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis
topGO
missMethyl
MethylationArrayData
MethylationArray
updated 11 months ago by
belinda.phipson
▴ 40 • written 11 months ago by
Grace
• 0
2
votes
6
replies
1.0k
views
cpg.annotate() in DMRcate error
DNAMethylation
methylationArrayAnalysis
DMRcate
MethylationArrayData
MethylationArray
updated 11 months ago by
Tim Peters
▴ 160 • written 11 months ago by
Grace
• 0
0
votes
1
reply
493
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
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
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Michael Love
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May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
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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…
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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
transcript name mapping between human and mouse
transcript name mapping between human and mouse
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
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