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Epic
•
reset
0
votes
0
replies
510
views
combat for batch effect correction in EPIC array data
Epigenetics
combat
EPIC
15 months ago
Jitendra
▴ 10
0
votes
2
replies
1.1k
views
Convert MethyLumiSet into RGChannelSet (Illumina EPIC methylation data)
methylumi
minfi
microarray
epic
4.2 years ago • updated 3.6 years ago
Nala
• 0
2
votes
1
reply
1.0k
views
lumi: Importing Methylation EPIC IDAT files
lumi
EPIC
Methylation
4.1 years ago
Zach Roe
▴ 10
1
vote
1
reply
975
views
SVA paired samples
SVA
EPIC
methylation
limma
updated 4.3 years ago by
James W. MacDonald
66k • written 4.3 years ago by
whyw6948
• 0
1
vote
3
replies
1.4k
views
Skewed beta-distribution from Methylation EPIC array data
ChAMP
EPIC
Illumina
Methylation
4.4 years ago
erwin.tomasich
▴ 10
1
vote
1
reply
843
views
Issue with ChAMP DMP.GUI
ChAMP
champ
methylation
EPIC
updated 4.4 years ago by
Yuan Tian
▴ 90 • written 4.4 years ago by
cherlyn.t
• 0
2
votes
16
replies
2.7k
views
Methylation EPIC array: ChAMP package-champ.load added probes?
methylation
epic
champ
champ.load()
Methylation array
updated 4.4 years ago by
Yuan Tian
▴ 290 • written 4.4 years ago by
Ankit
▴ 20
3
votes
5
replies
1.4k
views
DMRcate: Cpgids in DMR
methylation
Epic
annotation
DMRcate
updated 4.7 years ago by
James W. MacDonald
66k • written 4.7 years ago by
yoursbassanio
▴ 10
0
votes
4
replies
1.6k
views
WGCNA soft threshold with methylation data but no scale-free topology
methylation
EPIC
scale-free topology
WGCNA
updated 17 months ago by
shuo
• 0 • written 4.8 years ago by
enora.fremy
• 0
0
votes
1
reply
1.9k
views
How to analyse 450k and EPIC methylation data together?
minfi
450k
EPIC
analysis
updated 4.8 years ago by
James W. MacDonald
66k • written 4.8 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 4.9 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
antgomo
• 0
1
vote
3
replies
1.3k
views
Obtaining annotated results from rnbeads
rnbeads
EPIC
updated 5.0 years ago by
mscherer
▴ 50 • written 5.0 years ago by
Mark Dunning
★ 1.1k
0
votes
0
replies
1.1k
views
Beta values and M values cluster differently
methylationEPIC
minfi
microarray
epigenetics
EPIC
5.3 years ago
rmf
▴ 20
0
votes
0
replies
849
views
Best normalisation method
microarray
methylationEPIC
epigenetics
minfi
EPIC
5.3 years ago
rmf
▴ 20
2
votes
1
reply
1.4k
views
EPIC methylation array - analysis with ChAMP - how to export bed/wig file to view in UCSC/IGV?
methylation
epic
champ
updated 5.6 years ago by
Yuan Tian
▴ 290 • written 5.6 years ago by
D
▴ 10
0
votes
2
replies
2.1k
views
ChAMP Normalization on EPIC Methylation Data
ChAMP
Normalization
FunctionalNormalization
methylation
EPIC
5.7 years ago
yuabrahamliu
• 0
5
votes
9
replies
1.7k
views
limma Multi-level Experiments correcting for continuous covariates
limma
epic
methylation
limma design matrix
covariates
updated 5.8 years ago by
Aaron Lun
★ 28k • written 5.8 years ago by
c.bettencourt
• 0
0
votes
0
replies
938
views
missMethyl EPIC manifest update
missmethyl
epic
illuminahumanmethylationepicanno.ilm10b4.hg19.
ruv
5.8 years ago
peter.fransquet
• 0
0
votes
3
replies
1.6k
views
Minfi error when using force=TRUE in read.metharray
minfi
methylation
epic
5.8 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
5.9 years ago
sichan
• 0
2
votes
3
replies
2.2k
views
"Seems your IDAT file not from one Array"
EPIC
methylation
ChAMP
updated 6.2 years ago by
yura.grabovska
▴ 30 • written 6.2 years ago by
david.ch
• 0
0
votes
2
replies
1.9k
views
Illumina methylationEPIC demo data in IDAT format?
methylation
illumina
EPIC
methylationepic
idat
updated 7.1 years ago by
Guido Hooiveld
★ 4.0k • written 7.1 years ago by
Ellen O
• 0
1
vote
3
replies
1.5k
views
coef in dmrcate
dmrcate
bumphunter
methylation
epic
updated 7.2 years ago by
James W. MacDonald
66k • written 7.2 years ago by
yoursbassanio
▴ 10
0
votes
3
replies
2.1k
views
Unknown annotation in the RGChannelSetExtended object
minfi
idat
annotation
EPIC
updated 7.3 years ago by
xue.zhang
• 0 • written 7.3 years ago by
Frocha
▴ 20
0
votes
5
replies
2.3k
views
Different errors when attempting to normalize using wateRmelon (v1.1.18)
wateRmelon
methylation
EPIC
normalization
7.4 years ago
Wade Davis
▴ 60
0
votes
0
replies
1.4k
views
News:
ChAMP2 is online
epigenetics
EPIC
450K
ChAMP
News
7.7 years ago
Yuan Tian
▴ 90
0
votes
1
reply
2.0k
views
News:
Bug in ChAMP package champ.SVD() function
champ
methylation
450k
SVD
EPIC
News
7.8 years ago
Yuan Tian
▴ 90
1
vote
2
replies
1.7k
views
Problem reading EPIC array data: different bead locations on different EPIC Chips
minfi
illuminaio
epic
8.0 years ago
m.van_iterson
▴ 20
0
votes
2
replies
1.3k
views
error using EPIC early access version arrays with minfi
epic
minfi
read.metharray
software error
8.0 years ago
mcastrod
• 0
29 results • Page
1 of 1
Recent ...
Replies
Comment: Trouble reading samplesheet in with diffbind to create dba
by
Mallory
• 0
Thank you for your reply! There mustve been something wierd going on with my peak formats as you pointed out. I recalled all the peaks and …
Answer: Trouble reading samplesheet in with diffbind to create dba
by
Anthony
• 0
I was struggling with this today too. For me it happened because my peak files were not in the correct format. The "10 elements" refers to …
Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Votes
Answer: How to do DESeq2 on Kallisto Data
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
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