Showing : Minfi • reset
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49
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Problem with MethylAid ("Cannot get Manifest object for an 'Unknown' array") and Epicv2
minfi EPICv2manifest MethylAid
3 days ago pcibin • 0
0
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2
replies
145
views
Epicv2 conversion fail
minfi
16 days ago • updated 4 days ago Alex • 0
2
votes
1
reply
411
views
minfi latest update for EPIC V2 chip
minfi minfiDataEPIC
updated 8 weeks ago by 66k • written 8 weeks ago by • 0
1
vote
4
replies
311
views
minfi::read.metharray.exp
minfiData minfi
updated 10 weeks ago by ▴ 780 • written 10 weeks ago by • 0
2
votes
6
replies
1.9k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 3 months ago by ▴ 190 • written 7 months ago by ▴ 10
0
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4
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340
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Minfi - estimatecellscount
min minfi
updated 9 weeks ago by 66k • written 3 months ago by • 0
0
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0
replies
287
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Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi minfiDataEPIC
4 months ago Felix • 0
0
votes
1
reply
240
views
Matrix multiplication error to estimate telomere length
methylclockData minfi methylclock minfidata
updated 4 months ago by 66k • written 4 months ago by • 0
0
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7
replies
597
views
error in reading idat files and creating rgset
minfi MethylationArray
updated 4 months ago by 66k • written 4 months ago by • 0
1
vote
2
replies
868
views
EPIC array hg38 annotation?
minfi DMRcate
4 months ago mycetes • 0
0
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0
replies
337
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Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
6 months ago kyj2226 • 0
3
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2
replies
572
views
What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)"?
SBE CpG minfi CpGinterrogation
6 months ago kyj2226 • 0
0
votes
1
reply
415
views
Error in reading my csv file in minfi
minfiDataEPIC minfi
updated 7 months ago by ▴ 780 • written 7 months ago by • 0
0
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5
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1.1k
views
minfi, limma, adjusting for cell counts - integrating the resoults of estimateCellCounts into the linear regression model
minfi limma
8 months ago dorota.komar • 0
0
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2
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784
views
minfi differential methylation analysis errors
minfi
8 months ago matthew.sinton • 0
0
votes
3
replies
708
views
minfi bumphunter - probe IDs
minfi bumphunter
updated 9 months ago by ▴ 780 • written 9 months ago by • 0
0
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14
replies
2.3k
views
Error while preprocessing raw data from methylation array using minfi package
minfi
updated 5 months ago by • 0 • written 10 months ago by • 0
0
votes
1
reply
465
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC minfi
updated 10 months ago by 66k • written 10 months ago by • 0
0
votes
3
replies
1.1k
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 13 months ago by ▴ 780 • written 13 months ago by ▴ 10
0
votes
2
replies
625
views
ageData (minfi pipeline)
ageData missMethyl differentialvariability minfi
updated 3 months ago by • 0 • written 13 months ago by • 0
0
votes
1
reply
591
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 15 months ago by 51k • written 15 months ago by • 0
0
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0
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447
views
cpgCollapse error
450K blockfinder cpgCollapse minfi
15 months ago edward.esiribloom • 0
6
votes
5
replies
6.7k
views
minfi support of illumina Infinium methylationEPIC v2.0
methylationEPICv2.0 minfi
updated 8 months ago by ▴ 10 • written 15 months ago by ▴ 50
0
votes
1
reply
672
views
specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 16 months ago by 66k • written 16 months ago by • 0
0
votes
4
replies
1.1k
views
Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 16 months ago by 66k • written 16 months ago by • 0
1
vote
3
replies
951
views
Analysing Genome Studio .txt files with minfi
minfi
updated 16 months ago by 66k • written 16 months ago by • 0
0
votes
5
replies
1.3k
views
minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 16 months ago by • 0
0
votes
1
reply
789
views
Minfi::read.metharray.sheet, problem with pattern defined in non-local csv file
PatternLogic read.metharray.sheet list.files minfi
updated 16 months ago by 66k • written 16 months ago by • 0
2
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3
replies
1.1k
views
GSEA for paired methylation data
missMethyl GSEA minfi methylGSA
updated 18 months ago by ▴ 40 • written 18 months ago by • 0
0
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1
reply
1.1k
views
minfi read.metharray.sheet error
minfi
updated 19 months ago by 66k • written 19 months ago by • 0
0
votes
1
reply
1.0k
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile noob Normalization minfi minfiDataEPIC
updated 22 months ago by 66k • written 22 months ago by • 0
0
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0
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593
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
23 months ago calen.p.ryan • 0
0
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0
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752
views
Error: 'bumphunter()' only supports matrix-backed minfi objects.
bumphunter minfi genomi
2.1 years ago runye • 0
0
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1
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979
views
what is the format of DMPfinder in minfi package
minfi
updated 2.1 years ago by ▴ 780 • written 2.1 years ago by • 0
0
votes
3
replies
1.2k
views
methylated/unmethylated media threshold (EPIC assay)
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 ChAMP minfi
2.3 years ago • updated 2.1 years ago ramonfallon ▴ 20
0
votes
2
replies
2.8k
views
Illumina 450k Manifest: Probes Mapping to Multiple RefGene Groups and Names
illuminahumanmethylation450kanno.ilmn12.hg19 minfi illuminahumanmethylation450k.db methylation
updated 2.2 years ago by • 0 • written 8.8 years ago by ▴ 10
0
votes
0
replies
989
views
Annotation Illumina Infinium Mouse Methylation
Illumina minfi IlluminaHumanMethylationEPICmanifest
2.2 years ago octaviompa • 0
0
votes
0
replies
674
views
Minfi package: controlStripPlot colors
minfi
2.4 years ago Rebecca • 0
0
votes
1
reply
890
views
Over 800,000 probes failing to meet Detection P-value - minfi
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 failingprobes detectionP minfi
updated 2.4 years ago by 66k • written 2.4 years ago by • 0
0
votes
9
replies
3.3k
views
clarification about bumphunter value output
minfi bumphunter
updated 13 months ago by • 0 • written 6.3 years ago by • 0
0
votes
1
reply
928
views
EPIC ARRAY ANALYSIS
minfiDataEPIC #SexPrediction minfi
updated 2.8 years ago by ▴ 780 • written 2.8 years ago by • 0
0
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0
replies
792
views
minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
2.9 years ago ponche_de_kiwi • 0
3
votes
6
replies
1.8k
views
Minfi can't combineArrays
RGset combinearrays 450k minfi
updated 2.9 years ago by 66k • written 2.9 years ago by • 0
0
votes
0
replies
799
views
Incorporating limma duplicateCorrelation() function into minfi dmpFinder() for a mixed model approach
minfi limma lmm lmfit dmpFinder
3.1 years ago kyleyxw • 0
2
votes
2
replies
913
views
How to overcome issue linked to loading big R object
minfi R methylation
3.2 years ago Federica ▴ 10
0
votes
0
replies
831
views
shinyMethyl issue when using combinedArrays() from minfi - Error in object@greenControls[[i]][, o] : incorrect number of dimensions
shinyMethyl minfi
3.2 years ago Jeff ▴ 20
0
votes
1
reply
1.5k
views
conumee (for EPIC): query intensities not given for all probes
IlluminaHumanMethylationEPICmanifest minfi conumee
updated 3.2 years ago by ▴ 40 • written 3.2 years ago by • 0
1
vote
8
replies
1.5k
views
EPIC array single replicate pipeline?
minfi methylationArrayAnalysis
3.3 years ago • updated 3.2 years ago chay • 0
0
votes
1
reply
2.1k
views
plotSex error message
minfiData plotsex minfi minfiDataEPIC r
updated 3.4 years ago by • 0 • written 3.4 years ago by • 0
1
vote
4
replies
2.9k
views
Unable to read in the IDAT files using read.metharray.exp()
MethylationArrayData methy Bioconductor minfi
3.4 years ago shweta • 0
50 results • Page 1 of 1
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Replies
Comment: limma comparison for small sample size and how to get covariance matrix by Gordon Smyth 51k
Your MDS plot is better than before, but you are still not following the recommendation for making for making such plots given in the limma…
Comment: Mapping Between GenBank ID's and Uniprot by James W. MacDonald 66k
Also, ``` > result <- mapUniProt( from = "EMBL-GenBank-DDBJ_CDS", to = "UniProtKB", query = c("ACF95883.1") ) > result From…
Comment: Mapping Between GenBank ID's and Uniprot by James W. MacDonald 66k
Ugh, here's the link https://www.uniprot.org/id-mapping/uniprotkb/dd08aa16774d98ef087dc3bd708582012bba49e2/overview?fields=accession%2Cre…
Answer: Mapping Between GenBank ID's and Uniprot by James W. MacDonald 66k
The input should be 'EMBL-GenBank-DDBJ_CDS", as that is a GenBank ID.
Answer: XCMS2 of orbitrap data by Elodie • 0
Hi, I have the same question, I have acquired MS2 data with PRM analysis and inclusion lists of several ions. I have a list of product ion…
Votes
Answer: EPIC array hg38 annotation?
Answer: Why does DESeq2 give negative log2 fold change in treatment vs control for some
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: Ranking the GSEA Results
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
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