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EPIC
•
reset
0
votes
0
replies
445
views
combat for batch effect correction in EPIC array data
Epigenetics
combat
EPIC
12 months ago
Jitendra
▴ 10
0
votes
2
replies
998
views
Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi
minfi
microarray
epic
4.0 years ago • updated 3.4 years ago
Nala
• 0
2
votes
1
reply
943
views
lumi: Importing Methylation EPIC IDAT files
lumi
EPIC
Methylation
3.9 years ago
Zach Roe
▴ 10
1
vote
1
reply
913
views
SVA paired samples
SVA
EPIC
methylation
limma
updated 4.1 years ago by
James W. MacDonald
65k • written 4.1 years ago by
whyw6948
• 0
1
vote
3
replies
1.3k
views
Skewed beta-distribution from Methylation EPIC array data
ChAMP
EPIC
Illumina
Methylation
4.2 years ago
erwin.tomasich
▴ 10
1
vote
1
reply
793
views
Issue with ChAMP DMP.GUI
ChAMP
champ
methylation
EPIC
updated 4.2 years ago by
Yuan Tian
▴ 90 • written 4.2 years ago by
cherlyn.t
• 0
2
votes
16
replies
2.4k
views
Methylation EPIC array: ChAMP package-champ.load added probes?
methylation
epic
champ
champ.load()
Methylation array
updated 4.2 years ago by
Yuan Tian
▴ 270 • written 4.2 years ago by
Ankit
▴ 20
3
votes
5
replies
1.4k
views
DMRcate: Cpgids in DMR
methylation
Epic
annotation
DMRcate
updated 4.5 years ago by
James W. MacDonald
65k • written 4.5 years ago by
yoursbassanio
▴ 10
0
votes
4
replies
1.5k
views
WGCNA soft threshold with methylation data but no scale-free topology
methylation
EPIC
scale-free topology
WGCNA
updated 14 months ago by
shuo
• 0 • written 4.6 years ago by
enora.fremy
• 0
0
votes
1
reply
1.7k
views
How to analyse 450k and EPIC methylation data together?
minfi
450k
EPIC
analysis
updated 4.6 years ago by
James W. MacDonald
65k • written 4.6 years ago by
maduran
• 0
0
votes
3
replies
1.2k
views
Limma for cell components effect on response
450k
EPIC
minfi
limma
cell components
updated 4.7 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
antgomo
• 0
1
vote
3
replies
1.2k
views
Obtaining annotated results from rnbeads
rnbeads
EPIC
updated 4.8 years ago by
mscherer
▴ 50 • written 4.8 years ago by
Mark Dunning
★ 1.1k
0
votes
0
replies
1.0k
views
Beta values and M values cluster differently
methylationEPIC
minfi
microarray
epigenetics
EPIC
5.0 years ago
rmf
▴ 20
0
votes
0
replies
809
views
Best normalisation method
microarray
methylationEPIC
epigenetics
minfi
EPIC
5.0 years ago
rmf
▴ 20
2
votes
1
reply
1.2k
views
EPIC methylation array - analysis with ChAMP - how to export bed/wig file to view in UCSC/IGV?
methylation
epic
champ
updated 5.3 years ago by
Yuan Tian
▴ 270 • written 5.3 years ago by
D
▴ 10
0
votes
2
replies
2.0k
views
ChAMP Normalization on EPIC Methylation Data
ChAMP
Normalization
FunctionalNormalization
methylation
EPIC
5.5 years ago
yuabrahamliu
• 0
5
votes
9
replies
1.6k
views
limma Multi-level Experiments correcting for continuous covariates
limma
epic
methylation
limma design matrix
covariates
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
c.bettencourt
• 0
0
votes
0
replies
877
views
missMethyl EPIC manifest update
missmethyl
epic
illuminahumanmethylationepicanno.ilm10b4.hg19.
ruv
5.6 years ago
peter.fransquet
• 0
0
votes
3
replies
1.5k
views
Minfi error when using force=TRUE in read.metharray
minfi
methylation
epic
5.6 years ago
jbar3141
• 0
0
votes
0
replies
1.1k
views
Interpretation of control strip and beta density plots for Illumina methylation array data using minFi
minfi
methylation
EPIC
5.7 years ago
sichan
• 0
2
votes
3
replies
2.0k
views
"Seems your IDAT file not from one Array"
EPIC
methylation
ChAMP
updated 6.0 years ago by
yura.grabovska
▴ 30 • written 6.0 years ago by
david.ch
• 0
0
votes
2
replies
1.8k
views
Illumina methylationEPIC demo data in IDAT format?
methylation
illumina
EPIC
methylationepic
idat
updated 6.9 years ago by
Guido Hooiveld
★ 3.9k • written 6.9 years ago by
Ellen O
• 0
1
vote
3
replies
1.5k
views
coef in dmrcate
dmrcate
bumphunter
methylation
epic
updated 6.9 years ago by
James W. MacDonald
65k • written 6.9 years ago by
yoursbassanio
▴ 10
0
votes
3
replies
2.0k
views
Unknown annotation in the RGChannelSetExtended object
minfi
idat
annotation
EPIC
updated 7.0 years ago by
xue.zhang
• 0 • written 7.1 years ago by
Frocha
▴ 20
0
votes
5
replies
2.2k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon
methylation
EPIC
normalization
7.2 years ago
Wade Davis
▴ 60
0
votes
0
replies
1.4k
views
News:
ChAMP2 is online
epigenetics
EPIC
450K
ChAMP
News
7.5 years ago
Yuan Tian
▴ 90
0
votes
1
reply
1.9k
views
News:
Bug in ChAMP package champ.SVD() function
champ
methylation
450k
SVD
EPIC
News
7.6 years ago
Yuan Tian
▴ 90
1
vote
2
replies
1.6k
views
Problem reading EPIC array data: different bead locations on different EPIC Chips
minfi
illuminaio
epic
7.7 years ago
m.van_iterson
▴ 20
0
votes
2
replies
1.2k
views
error using EPIC early access version arrays with minfi
epic
minfi
read.metharray
software error
7.8 years ago
mcastrod
• 0
29 results • Page
1 of 1
Recent ...
Replies
Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
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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Dario Strbenac
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Ankit
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michael.s
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James W. MacDonald
65k
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Pierre Lindenbaum
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