Showing : methylationArrayAnalysis • reset
2
votes
7
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2.4k
views
Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 6 months ago by • 0 • written 3.4 years ago by ▴ 20
1
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3
replies
503
views
Merging Methylation data (M-values) with phenotypic data
MethylationArrayData methylationArrayAnalysis
updated 8 months ago by 65k • written 8 months ago by • 0
0
votes
2
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868
views
Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
3.2 years ago sissialva21 • 0
1
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1
reply
1.1k
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 3.5 years ago by 65k • written 3.5 years ago by • 0
1
vote
8
replies
1.4k
views
EPIC array single replicate pipeline?
minfi methylationArrayAnalysis
3.1 years ago • updated 3.0 years ago chay • 0
1
vote
1
reply
269
views
Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 9 weeks ago by 65k • written 9 weeks ago by • 0
0
votes
2
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1.0k
views
Error in loading file using champ.load() from ChAMP package
champ.load epicarray ChAMP methylationArrayAnalysis
12 months ago • updated 11 months ago arisarkar88 ▴ 40
0
votes
1
reply
717
views
EPIC v2 demo data from blood samples
MethylationArray methylationArrayAnalysis
updated 6 months ago by 65k • written 6 months ago by • 0
0
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1
reply
2.4k
views
Warning messages in detecting P-values
minfiDataEPIC methylationArrayAnalysis
updated 9 months ago by ★ 4.0k • written 9 months ago by ▴ 10
0
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5
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1.2k
views
minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 13 months ago by • 0
0
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7
replies
247
views
Methylation Analysis experiment design using Limma
DNAMethylation limma methylationArrayAnalysis
8 days ago • updated 2 days ago hortense96 • 0
0
votes
1
reply
535
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 12 months ago by 50k • written 13 months ago by • 0
0
votes
4
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1.0k
views
Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 13 months ago by 65k • written 13 months ago by • 0
1
vote
2
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570
views
edgeR, RRBS Library size preparation
RRBSdata edgeR methylationArrayAnalysis
9 months ago Krzysztof • 0
1
vote
2
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629
views
How to perform a methylation analyisis from m values
MethylationArrayData methylationArrayAnalysis
10 months ago Irene • 0
2
votes
6
replies
1.1k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 12 months ago by ▴ 170 • written 12 months ago by • 0
0
votes
7
replies
2.6k
views
ERROR happens when install "DSS" package
methylationArrayAnalysis ChAMP DMP DSS
updated 18 months ago by 65k • written 23 months ago by • 0
0
votes
3
replies
2.7k
views
Error: BiocParallel errors 1 remote errors, element index: 1 506 unevaluated and other errors first remote error:
methylationArrayAnalysis
updated 9 months ago by • 0 • written 18 months ago by • 0
2
votes
4
replies
610
views
Correct the batch effect in methylation analysis in R
BatchEffect limma methylationArrayAnalysis
updated 4 months ago by 50k • written 4 months ago by • 0
3
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6
replies
658
views
Methylation data analysis
MethylationArrayData methylationArrayAnalysis
5 months ago aldea85 • 0
0
votes
1
reply
595
views
specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 13 months ago by 65k • written 13 months ago by • 0
1
vote
1
reply
551
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 11 months ago by ▴ 40 • written 12 months ago by • 0
0
votes
0
replies
706
views
filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
2.1 years ago Jitendra ▴ 10
5
votes
1
reply
1.4k
views
Support for new Illumina human methylation EPIC array v2
human methylationArrayAnalysis
updated 3 months ago by • 0 • written 13 months ago by ▴ 70
2
votes
4
replies
1.2k
views
How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis illuminaio beadarray DSS bsseqData
2.2 years ago Jojo • 0
0
votes
0
replies
912
views
getsex function error.
QualityControl methylationArrayAnalysis
2.2 years ago zusman • 0
1
vote
4
replies
441
views
EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation MethylationArray methylationArrayAnalysis illumina
11 weeks ago mikat • 0
0
votes
2
replies
1.3k
views
champ.SVD() : Error in while (step == 0) { : missing value where TRUE/FALSE needed
methylationArrayAnalysis EPICarray ChAMP Champ.SVD
3.1 years ago • updated 3.0 years ago arisarkar88 ▴ 40
0
votes
1
reply
653
views
Job: 'Omics data analyst for HPCBio, University of Illinois
SingleCell rnaseq methylationArrayAnalysis Spatial
written 16 months ago by ★ 2.0k
0
votes
2
replies
952
views
Limma experiment design and making contrasts
limma methylationArrayAnalysis
3.0 years ago Kesava • 0
0
votes
6
replies
3.3k
views
Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
2.8 years ago FWNL15 • 0
31 results • Page 1 of 1
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0
Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre
Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k
Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…
Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Votes
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
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