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dna methylation
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0
votes
1
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1.4k
views
Estimate cell proportion from beta values using minfi estimateCellCounts?
minfi
cell proportion
estimateCellCounts
DNA Methylation
5.8 years ago
grayapply2009
• 0
1
vote
2
replies
3.1k
views
WGCNA on methylation data
normalization
DNA methylation
WGCNA
updated 6.6 years ago by
Peter Langfelder
★ 3.0k • written 6.6 years ago by
enora.fremy
• 0
1
vote
2
replies
1.5k
views
Comparing more than 2 experimental groups with MEDIPS?
medips
medip-seq
dna methylation
dmr analysis
updated 7.2 years ago by
Lukas Chavez
▴ 570 • written 7.2 years ago by
mtefit
• 0
7
votes
7
replies
2.4k
views
Using GenomicDataCommons R package to identify cases with both DNA methylation and gene expression data
R
gdc
rna-seq
dna methylation
updated 7.3 years ago by
Sean Davis
21k • written 7.3 years ago by
RichardJActon
▴ 50
1
vote
2
replies
2.1k
views
Odd Sample after SWAN normalisation, DNA methylation analysis EPIC array
minfi
normalization
outliers
dna methylation
densityplot
7.5 years ago
peter.fransquet
• 0
0
votes
0
replies
1.1k
views
iEVORA wrapping up error
differential variability
dna methylation
iEVORA
DVP
7.7 years ago
poojitha.stemcell
▴ 10
0
votes
0
replies
1.5k
views
differential methylation analysis with RnBeads
rnbeads
methylation
methylationepic
dna methylation
7.9 years ago
gabrielrfries
• 0
0
votes
1
reply
1.5k
views
Problem in working with BiSeq - BSraw
dna methylation
biseq
updated 8.1 years ago by
Gordon Smyth
53k • written 8.1 years ago by
ahmad.moousavi
• 0
2
votes
5
replies
2.5k
views
Error when prepare the TCGAdata
tcgabiolinks
dna methylation
updated 8.2 years ago by
Marcel Ramos
700 • written 8.2 years ago by
michaelwxf2012
• 0
1
vote
1
reply
2.6k
views
Beta Value Analysis - DNA Methylation Dataset
dna methylation
illimina 450k methylation
beta
M
significance
updated 8.3 years ago by
James W. MacDonald
68k • written 8.3 years ago by
skids121
• 0
0
votes
0
replies
1.7k
views
DNA methylation 450k data - minfi - preprocessFunnorm - CNV cases vs non-CNV controls
CNV
minfi
preprocessing
dna methylation
8.8 years ago
Thomas
• 0
1
vote
2
replies
1.4k
views
Correlating DNA methylation and Illumina gene expression microarray data
microarray
HM450
dna methylation
cohcap
updated 9.0 years ago by
James W. MacDonald
68k • written 9.0 years ago by
poojitha.stemcell
▴ 10
0
votes
1
reply
1.5k
views
error when using bumphunter package with illumina 450k data
minfi
bumphunter
DNA methylation
illumina450k
updated 9.6 years ago by
James W. MacDonald
68k • written 9.6 years ago by
fleur_p90
• 0
13 results • Page
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Comment: Bile acid analysis with limpa
by
ATpoint
★ 5.0k
Wilcox/Mann-Whitney-U cannot work because it is bound to sample size even when all of group X are lower than all of group Y. At 4 vs 3 the …
Comment: chemmineOB install help
by
Jeremy
• 0
I could install ChemmineOB on my MacBook Pro M1 Max using this procedure **1. Install open-babel and eigen using homebrew and create a cus…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Gordon Smyth
53k
The design matrix that I described above is completely general. I imagine that it would be possible to use the same approach to generate fu…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
• 0
Cool, glad to hear I wasn't missing some functionality in DESeq2. I don't know that much about the differences between DESeq2 vs edgeR; my …
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Michael Love
43k
Yes, so for one thing, note that Gordon has provided code for doing what you are asking in edgeR, which you can go ahead and use. You aske…
Votes
A: DESeq2: Is it possible to convert read counts to expression values via TPM and r
A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen
Comment: limpa analysis advice
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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