Showing : Minfi • reset
2
votes
1
reply
146
views
minfi latest update for EPIC V2 chip
minfi minfiDataEPIC
updated 8 days ago by 65k • written 8 days ago by • 0
1
vote
4
replies
221
views
minfi::read.metharray.exp
minfiData minfi
updated 21 days ago by ▴ 780 • written 23 days ago by • 0
2
votes
6
replies
1.5k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 6 weeks ago by ▴ 180 • written 5 months ago by ▴ 10
0
votes
4
replies
261
views
Minfi - estimatecellscount
min minfi
updated 16 days ago by 65k • written 6 weeks ago by • 0
0
votes
0
replies
214
views
Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi minfiDataEPIC
9 weeks ago Felix • 0
0
votes
1
reply
189
views
Matrix multiplication error to estimate telomere length
methylclockData minfi methylclock minfidata
updated 11 weeks ago by 65k • written 11 weeks ago by • 0
0
votes
7
replies
482
views
error in reading idat files and creating rgset
minfi MethylationArray
updated 3 months ago by 65k • written 3 months ago by • 0
0
votes
2
replies
586
views
EPIC array hg38 annotation?
minfi DMRcate
3 months ago mycetes • 0
0
votes
0
replies
272
views
Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
4 months ago kyj2226 • 0
3
votes
2
replies
476
views
What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)"?
SBE CpG minfi CpGinterrogation
5 months ago kyj2226 • 0
0
votes
1
reply
347
views
Error in reading my csv file in minfi
minfiDataEPIC minfi
updated 5 months ago by ▴ 780 • written 5 months ago by • 0
0
votes
5
replies
955
views
minfi, limma, adjusting for cell counts - integrating the resoults of estimateCellCounts into the linear regression model
minfi limma
7 months ago dorota.komar • 0
0
votes
2
replies
687
views
minfi differential methylation analysis errors
minfi
7 months ago matthew.sinton • 0
0
votes
3
replies
591
views
minfi bumphunter - probe IDs
minfi bumphunter
updated 7 months ago by ▴ 780 • written 7 months ago by • 0
0
votes
14
replies
2.0k
views
Error while preprocessing raw data from methylation array using minfi package
minfi
updated 3 months ago by • 0 • written 8 months ago by • 0
0
votes
1
reply
407
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC minfi
updated 8 months ago by 65k • written 8 months ago by • 0
0
votes
3
replies
966
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 12 months ago by ▴ 780 • written 12 months ago by ▴ 10
0
votes
2
replies
585
views
ageData (minfi pipeline)
ageData missMethyl differentialvariability minfi
updated 7 weeks ago by • 0 • written 12 months ago by • 0
0
votes
1
reply
555
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 13 months ago by 50k • written 13 months ago by • 0
0
votes
0
replies
417
views
cpgCollapse error
450K blockfinder cpgCollapse minfi
14 months ago edward.esiribloom • 0
6
votes
5
replies
6.1k
views
minfi support of illumina Infinium methylationEPIC v2.0
methylationEPICv2.0 minfi
updated 6 months ago by ▴ 10 • written 14 months ago by ▴ 50
0
votes
1
reply
625
views
specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 14 months ago by 65k • written 14 months ago by • 0
0
votes
4
replies
1.0k
views
Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 14 months ago by 65k • written 14 months ago by • 0
1
vote
3
replies
859
views
Analysing Genome Studio .txt files with minfi
minfi
updated 14 months ago by 65k • written 14 months ago by • 0
0
votes
5
replies
1.2k
views
minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 14 months ago by • 0
0
votes
1
reply
721
views
Minfi::read.metharray.sheet, problem with pattern defined in non-local csv file
PatternLogic read.metharray.sheet list.files minfi
updated 14 months ago by 65k • written 14 months ago by • 0
2
votes
3
replies
953
views
GSEA for paired methylation data
missMethyl GSEA minfi methylGSA
updated 16 months ago by ▴ 40 • written 16 months ago by • 0
0
votes
1
reply
1.0k
views
minfi read.metharray.sheet error
minfi
updated 17 months ago by 65k • written 17 months ago by • 0
0
votes
1
reply
946
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile noob Normalization minfi minfiDataEPIC
updated 21 months ago by 65k • written 21 months ago by • 0
0
votes
0
replies
549
views
A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
21 months ago calen.p.ryan • 0
0
votes
0
replies
715
views
Error: 'bumphunter()' only supports matrix-backed minfi objects.
bumphunter minfi genomi
23 months ago runye • 0
0
votes
1
reply
916
views
what is the format of DMPfinder in minfi package
minfi
updated 23 months ago by ▴ 780 • written 23 months ago by • 0
0
votes
3
replies
1.2k
views
methylated/unmethylated media threshold (EPIC assay)
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 ChAMP minfi
2.1 years ago • updated 24 months ago ramonfallon ▴ 20
0
votes
2
replies
2.7k
views
Illumina 450k Manifest: Probes Mapping to Multiple RefGene Groups and Names
illuminahumanmethylation450kanno.ilmn12.hg19 minfi illuminahumanmethylation450k.db methylation
updated 2.1 years ago by • 0 • written 8.6 years ago by ▴ 10
0
votes
0
replies
935
views
Annotation Illumina Infinium Mouse Methylation
Illumina minfi IlluminaHumanMethylationEPICmanifest
2.1 years ago octaviompa • 0
0
votes
0
replies
650
views
Minfi package: controlStripPlot colors
minfi
2.2 years ago Rebecca • 0
0
votes
1
reply
847
views
Over 800,000 probes failing to meet Detection P-value - minfi
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 failingprobes detectionP minfi
updated 2.3 years ago by 65k • written 2.3 years ago by • 0
0
votes
9
replies
3.1k
views
clarification about bumphunter value output
minfi bumphunter
updated 11 months ago by • 0 • written 6.2 years ago by • 0
0
votes
1
reply
892
views
EPIC ARRAY ANALYSIS
minfiDataEPIC #SexPrediction minfi
updated 2.6 years ago by ▴ 780 • written 2.6 years ago by • 0
0
votes
0
replies
748
views
minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
2.8 years ago ponche_de_kiwi • 0
3
votes
6
replies
1.7k
views
Minfi can't combineArrays
RGset combinearrays 450k minfi
updated 2.8 years ago by 65k • written 2.8 years ago by • 0
0
votes
0
replies
772
views
Incorporating limma duplicateCorrelation() function into minfi dmpFinder() for a mixed model approach
minfi limma lmm lmfit dmpFinder
3.0 years ago kyleyxw • 0
2
votes
2
replies
875
views
How to overcome issue linked to loading big R object
minfi R methylation
3.0 years ago Federica ▴ 10
0
votes
0
replies
802
views
shinyMethyl issue when using combinedArrays() from minfi - Error in object@greenControls[[i]][, o] : incorrect number of dimensions
shinyMethyl minfi
3.1 years ago Jeff ▴ 20
0
votes
1
reply
1.4k
views
conumee (for EPIC): query intensities not given for all probes
IlluminaHumanMethylationEPICmanifest minfi conumee
updated 3.0 years ago by ▴ 40 • written 3.1 years ago by • 0
1
vote
8
replies
1.4k
views
EPIC array single replicate pipeline?
minfi methylationArrayAnalysis
3.1 years ago chay • 0
0
votes
1
reply
2.0k
views
plotSex error message
minfiData plotsex minfi minfiDataEPIC r
updated 3.2 years ago by • 0 • written 3.2 years ago by • 0
1
vote
4
replies
2.7k
views
Unable to read in the IDAT files using read.metharray.exp()
MethylationArrayData methy Bioconductor minfi
3.2 years ago shweta • 0
1
vote
5
replies
4.2k
views
minfi - error when reading idat files
minfi methylation
updated 20 months ago by • 0 • written 6.9 years ago by ▴ 10
0
votes
9
replies
2.8k
views
Rhdf5lib installation problem
minfi Rhdf5lib
updated 3.3 years ago by ★ 6.5k • written 3.3 years ago by ▴ 160
50 results • Page 1 of 1
Recent ...
Replies
Comment: Query regarding phyloseq object construct with QIIME output by Rosso • 0
Constructing a phyloseq object from QIIME output involves several steps to integrate taxonomic abundance data, sample metadata, and phyloge…
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Marcel Ramos 690
`BiocManager` does not install local packages. It only installs Bioconductor, CRAN, and GitHub ones. You should install local packages w…
Comment: error running enricher from clusterprofiler by Yael • 0
It worked!!! Thanks alot, i think something in the gene_list wasnt right... Thanks agian
Comment: Create protein sequences including variants from a VCF file by Yun • 0
This cannot work for a SNV file, since `injectSNPs` need a `SNPlocs` object
Comment: Can log2cpm be used for proteomics data normalization? by Daniel • 0
Thank you for the quick reply and I apologize for it being on the wrong thread but the "post tag" function wasn't working properly.
Votes
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Answer: Trim/Filter out-of-bounds GRanges
Comment: How to correctly adjust for gender in edgeR
Create protein sequences including variants from a VCF file
A: DEXSeq design formula
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