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methylation
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1
vote
8
replies
3.2k
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Normalization starting from beta values in minfi
methylation
minfi
written 7.8 years ago by
Asma rabe
▴ 290
1
vote
8
replies
464
views
edgeR error "Design matrix not of full rank"
edgeR
methylation
updated 8 weeks ago by
Gordon Smyth
50k • written 9 weeks ago by
sat
• 0
0
votes
7
replies
1.7k
views
error with champ.load
ChAMP
champ
methylation
updated 7 months ago by
mike
• 0 • written 4.0 years ago by
jkong
• 0
1
vote
3
replies
1.3k
views
Error in the UcscTrack() in package "Gviz"
DMR
Methylation
R
Gviz
updated 4 months ago by
Robert Ivanek
▴ 730 • written 2.9 years ago by
ltzhou
• 0
0
votes
2
replies
1.4k
views
Error processing Infinium 450K Methylation data using Minfi
minfi
software error
methylation
illumina450k
updated 10 months ago by
kuzn.di
• 0 • written 8.3 years ago by
pm2015
• 0
0
votes
2
replies
693
views
error in champ.SVD
svd
methylation
champ
updated 11 months ago by
shepherl
3.8k • written 11 months ago by
Giulia
• 0
0
votes
2
replies
1.9k
views
ChAMP::champ.norm Error in champ.BMIQ(beta[, x], design.v, sampleID = colnames(beta)[x], : task 1 failed - "only defined on a data frame with all…
ChAMP
methylation
BMIQ
updated 4 months ago by
peter.brederlo
• 0 • written 4.9 years ago by
moldach
▴ 20
0
votes
0
replies
202
views
Normalization in methylation analysis
Methylation
minfi
preprocessQuantile
MethylationArrayData
preprocessFunnorm
3 months ago
kyj2226
• 0
8 results • Page
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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…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
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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