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wateRmelon
•
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497
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation
wateRmelon
Computation
minfi
19 months ago
calen.p.ryan
• 0
0
votes
7
replies
958
views
Getting wrong rownames of MSet object when using pfilter from watermelon
wateRmelon
Illumina EPIC
pfilter
updated 4.4 years ago by
lschal
• 0 • written 4.4 years ago by
anne-kristin.stavrum
• 0
1
vote
3
replies
1.4k
views
Combining pfilter (wateRmelon) and preprocessNoob (minfi)
wateRmelon
minfi
methylation
pfilter
preprocessNoob
updated 4.6 years ago by
tgorri
▴ 10 • written 4.6 years ago by
sara.blocquiaux
• 0
0
votes
0
replies
1.1k
views
Error in ENmix::bmiq.mc(): BMIQ estimates encountered error, try to run it again
methylation
ENmix
BMIQ
wateRmelon
5.1 years ago
moldach
▴ 20
0
votes
1
reply
1.4k
views
MethylSet to MethyLumiSet
minfi
methylumi
watermelon
7.1 years ago
Tom
▴ 10
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
2
replies
1.4k
views
Error while using BMIQ normalisation on a methylumiSet
limma
watermelon
methylumi
bmiq
updated 7.3 years ago by
tgorri
▴ 10 • written 7.3 years ago by
poojitha.stemcell
▴ 10
1
vote
2
replies
1.9k
views
QC/normalization standards for cancer studies with 450k array data
minfi
watermelon
cancer
450k
normalization
updated 8.7 years ago by
Kasper Daniel Hansen
★ 6.5k • written 8.7 years ago by
metamaden
▴ 10
0
votes
3
replies
2.0k
views
minfi getProbeInfo error ( was WateRmelon betaqn error)
watermelon
betaqn
pfilter
getProbeInfo
minfi
9.1 years ago
gctromp
▴ 10
0
votes
10
replies
2.2k
views
MethyLumiM to MethyLumiSet?
convert
lumi
methylumi
minfi
wateRmelon
convert
lumi
methylumi
minfi
wateRmelon
updated 10.4 years ago by
Tim Triche
★ 4.2k • written 10.4 years ago by
Martin Rijlaarsdam
▴ 190
10 results • Page
1 of 1
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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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michael.s
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James W. MacDonald
65k
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Pierre Lindenbaum
▴ 10
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Gordon Smyth
50k
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Jenny Drnevich
★ 2.0k
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