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DNAMethylation
•
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1
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2
replies
777
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normalizatino of dna methylation EPIC data
DNA
minfiData
minfiDataEPIC
DNAMethylation
minfi
8 months ago
user_bioinfo
• 0
0
votes
0
replies
251
views
Batch Correction while implementing QSEA package
qsea
MEDIPS
MEDIPSData
DNAMethylation
8 months ago
User3088
• 0
0
votes
0
replies
673
views
Job:
Postdoctoral Research Associate in Computational Epigenomics
Phd
SingleCell
DNAMethylation
Shanghai
JobPosting
13 months ago
xiaolong
• 0
0
votes
7
replies
2.3k
views
Methylation Analysis experiment design using Limma
DNAMethylation
limma
methylationArrayAnalysis
18 months ago
hortense96
• 0
0
votes
0
replies
633
views
DMRcate error need at least two non-NA values to interpolate
DNAMethylation
DMRcate
19 months ago
Macsue
• 0
1
vote
6
replies
1.6k
views
unable to access Annotationhub latest record
DNAMethylation
AnnotationHub
EPICv2manifest
annotation
updated 18 months ago by
Tim Peters
▴ 230 • written 19 months ago by
s.malik
• 0
1
vote
3
replies
2.1k
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation
GO
MethylationArray
missMethyl
EPICv2
20 months ago • updated 13 months ago
s.malik
• 0
0
votes
4
replies
2.3k
views
Seeking Strategies for Managing Duplicate CpG Entries in EPIC v2 Manifest
DNAMethylation
EPICv2
IlluminaHumanMethylationEPICmanifest
updated 20 months ago by
James W. MacDonald
68k • written 20 months ago by
rae.alshammari
▴ 20
1
vote
4
replies
1.4k
views
limma design model for categorical variable
DNAMethylation
limmaGUI
biostatistics
limma
updated 20 months ago by
Gordon Smyth
53k • written 20 months ago by
Jitendra
▴ 10
0
votes
2
replies
725
views
Sample-specific methylation values using QSEA
DNAMethylation
cfMeDIP-seq
cfDNA
qsea
20 months ago • updated 8 months ago
User3088
• 0
1
vote
4
replies
1.6k
views
EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation
MethylationArray
methylationArrayAnalysis
illumina
20 months ago
mikat
• 0
0
votes
1
reply
941
views
topGO() analysis of DMPs in missMethyl methylation analysis
DNAMethylation
missMethyl
Pathways
2.5 years ago
Grace
• 0
2
votes
6
replies
1.9k
views
cpg.annotate() in DMRcate error
DNAMethylation
methylationArrayAnalysis
DMRcate
MethylationArrayData
MethylationArray
updated 2.5 years ago by
Tim Peters
▴ 230 • written 2.5 years ago by
Grace
• 0
2
votes
6
replies
1.7k
views
No enriched GO terms CpGs
DNAMethylation
missMethyl
updated 2.6 years ago by
belinda.phipson
▴ 40 • written 2.6 years ago by
Joana
• 0
0
votes
0
replies
953
views
A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation
wateRmelon
Computation
minfi
3.2 years ago
calen.p.ryan
• 0
3
votes
8
replies
2.1k
views
Annotation using QSEA package
DNAMethylation
QSEA
MEDIP
4.4 years ago • updated 4.3 years ago
rtrivedi1
▴ 10
3
votes
5
replies
3.4k
views
Why the LogFC and delta-beta value are different in ChAMP
DNAMethylation
ChAMP
updated 20 months ago by
sup0903
• 0 • written 4.9 years ago by
Hongbii
• 0
17 results • Page
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Answer: Using DESeq2 for age prediction
by
ATpoint
★ 5.0k
The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis
by
piffelpaff
▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis
by
Michael Love
43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
Votes
A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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