Showing : minfi • reset
0
votes
2
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416
views
Merging EPICV1 and V2 betas
minfiDataEPIC minfi
updated 13 days ago by • 0 • written 15 days ago by • 0
1
vote
2
replies
570
views
normalizatino of dna methylation EPIC data
DNA minfiData minfiDataEPIC DNAMethylation minfi
7 weeks ago user_bioinfo • 0
4
votes
8
replies
1.2k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
4 months ago • updated 7 weeks ago xiaofeiwang198266 • 0
1
vote
4
replies
621
views
Handling Epic Array Data
minfi
4 months ago Melisa Tecik • 0
2
votes
2
replies
504
views
preprocessIllumina error with EPICv2 array
minfi EPICv2manifest
4 months ago Rakesh • 0
2
votes
5
replies
752
views
dmpFinder for other objects
methylset minfi dmpFinder betaHMM beta
updated 6 months ago by 68k • written 6 months ago by • 0
0
votes
2
replies
718
views
DMPs enrichment for MOUSE DNA methylation array
minfi mCSEA missme missMethyl
updated 7 months ago by • 0 • written 7 months ago by • 0
4
votes
12
replies
4.8k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 8 months ago by ▴ 230 • written 16 months ago by ▴ 20
0
votes
1
reply
573
views
minfi - bumphunter value problem
bumphunter minfiData minfi bumphun
updated 8 months ago by 68k • written 9 months ago by • 0
0
votes
0
replies
515
views
Problem with MethylAid ("Cannot get Manifest object for an 'Unknown' array") and Epicv2
minfi EPICv2manifest MethylAid
9 months ago pcibin • 0
0
votes
2
replies
860
views
Epicv2 conversion fail
minfi
9 months ago Alex • 0
2
votes
3
replies
1.8k
views
minfi latest update for EPIC V2 chip
minfi minfiDataEPIC
updated 3 months ago by • 0 • written 11 months ago by • 0
1
vote
4
replies
656
views
minfi::read.metharray.exp
minfiData minfi
updated 11 months ago by ▴ 780 • written 11 months ago by • 0
0
votes
4
replies
839
views
Minfi - estimatecellscount
min minfi
updated 11 months ago by 68k • written 12 months ago by • 0
0
votes
0
replies
646
views
Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi minfiDataEPIC
13 months ago Felix • 0
0
votes
1
reply
506
views
Matrix multiplication error to estimate telomere length
methylclockData minfi methylclock minfidata
updated 13 months ago by 68k • written 13 months ago by • 0
0
votes
7
replies
1.1k
views
error in reading idat files and creating rgset
minfi MethylationArray
updated 14 months ago by 68k • written 14 months ago by • 0
1
vote
2
replies
2.4k
views
EPIC array hg38 annotation?
minfi DMRcate
14 months ago mycetes • 0
0
votes
0
replies
895
views
Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
15 months ago kyj2226 • 0
3
votes
2
replies
1.1k
views
What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)"?
SBE CpG minfi CpGinterrogation
16 months ago kyj2226 • 0
0
votes
1
reply
741
views
Error in reading my csv file in minfi
minfiDataEPIC minfi
updated 16 months ago by ▴ 780 • written 16 months ago by • 0
0
votes
5
replies
1.6k
views
minfi, limma, adjusting for cell counts - integrating the resoults of estimateCellCounts into the linear regression model
minfi limma
18 months ago dorota.komar • 0
0
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2
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1.3k
views
minfi differential methylation analysis errors
minfi
18 months ago matthew.sinton • 0
0
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3
replies
1.2k
views
minfi bumphunter - probe IDs
minfi bumphunter
updated 18 months ago by ▴ 780 • written 18 months ago by • 0
0
votes
14
replies
3.9k
views
Error while preprocessing raw data from methylation array using minfi package
minfi
updated 14 months ago by • 0 • written 19 months ago by • 0
1
vote
1
reply
800
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC minfi
updated 19 months ago by 68k • written 19 months ago by ▴ 10
0
votes
3
replies
1.5k
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 23 months ago by ▴ 780 • written 23 months ago by ▴ 10
0
votes
2
replies
899
views
ageData (minfi pipeline)
ageData missMethyl differentialvariability minfi
updated 12 months ago by • 0 • written 23 months ago by • 0
0
votes
1
reply
887
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 2.0 years ago by 52k • written 2.0 years ago by • 0
0
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0
replies
651
views
cpgCollapse error
450K blockfinder cpgCollapse minfi
2.1 years ago edward.esiribloom • 0
6
votes
6
replies
9.5k
views
minfi support of illumina Infinium methylationEPIC v2.0
methylationEPICv2.0 minfi
updated 6 months ago by • 0 • written 2.1 years ago by ▴ 50
0
votes
1
reply
943
views
specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
votes
4
replies
1.6k
views
Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
1
vote
3
replies
1.4k
views
Analysing Genome Studio .txt files with minfi
minfi
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
votes
5
replies
2.0k
views
minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 2.1 years ago by • 0
0
votes
1
reply
1.2k
views
Minfi::read.metharray.sheet, problem with pattern defined in non-local csv file
PatternLogic read.metharray.sheet list.files minfi
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
2
votes
3
replies
1.7k
views
GSEA for paired methylation data
missMethyl GSEA minfi methylGSA
updated 2.3 years ago by ▴ 40 • written 2.3 years ago by • 0
0
votes
1
reply
1.5k
views
minfi read.metharray.sheet error
minfi
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
0
votes
1
reply
1.5k
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile noob Normalization minfi minfiDataEPIC
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
votes
0
replies
835
views
A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
2.7 years ago calen.p.ryan • 0
0
votes
0
replies
961
views
Error: 'bumphunter()' only supports matrix-backed minfi objects.
bumphunter minfi genomi
2.8 years ago runye • 0
0
votes
1
reply
1.4k
views
what is the format of DMPfinder in minfi package
minfi
updated 2.9 years ago by ▴ 780 • written 2.9 years ago by • 0
0
votes
3
replies
1.6k
views
methylated/unmethylated media threshold (EPIC assay)
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 ChAMP minfi
3.0 years ago • updated 2.9 years ago ramonfallon ▴ 20
0
votes
2
replies
3.4k
views
Illumina 450k Manifest: Probes Mapping to Multiple RefGene Groups and Names
illuminahumanmethylation450kanno.ilmn12.hg19 minfi illuminahumanmethylation450k.db methylation
updated 3.0 years ago by • 0 • written 9.5 years ago by ▴ 10
0
votes
0
replies
1.3k
views
Annotation Illumina Infinium Mouse Methylation
Illumina minfi IlluminaHumanMethylationEPICmanifest
3.0 years ago octaviompa • 0
0
votes
0
replies
843
views
Minfi package: controlStripPlot colors
minfi
3.1 years ago Rebecca • 0
0
votes
1
reply
1.2k
views
Over 800,000 probes failing to meet Detection P-value - minfi
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 failingprobes detectionP minfi
updated 3.2 years ago by 68k • written 3.2 years ago by • 0
0
votes
9
replies
3.9k
views
clarification about bumphunter value output
minfi bumphunter
updated 22 months ago by • 0 • written 7.1 years ago by • 0
0
votes
1
reply
1.3k
views
EPIC ARRAY ANALYSIS
minfiDataEPIC #SexPrediction minfi
updated 3.5 years ago by ▴ 780 • written 3.5 years ago by • 0
0
votes
0
replies
1.1k
views
minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
3.7 years ago ponche_de_kiwi • 0
50 results • Page 1 of 1
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Comment: BiocParallel_1.40.1.tar.gz not available by Johan • 0
It worked. Thanks :)
Comment: Model performance for spline modelling of RNA-seq timecourses in edgeR by skiaphrene ▴ 10
Dear Gordon, Thank you very much for your prompt reply. I agree with the limma/edgeR perspective of including all potentially explanatory…
Comment: how to use `arrayWeightsQuick()`? by Gordon Smyth 52k
What sort of object is `expression`? Does it contain any missing values?
Answer: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by shocked.tick.zyet • 0
Dealing with those adjusted p-values in ChAMP can feel like a frustrating game of [Uno Online](https://unoonlinefree.com) , especially when…
Comment: DESeq2 lfcShrink drastic shrinkage by Nick • 0
Did you ever figure out the cause of this? I am seeing very similar results and wondering if you have advice on how you may have resolved t…
Votes
Answer: BiocParallel_1.40.1.tar.gz not available
Modelling gene program dynamics across time with {lemur}
A: DESeq2 one group vs multiple groups comparison in presence of batch effect
Comment: BiocParallel_1.40.1.tar.gz not available
Comment: BiocParallel_1.40.1.tar.gz not available
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