Showing : Minfi • reset
0
votes
3
replies
1.2k
views
Merging EPICV1 and V2 betas
minfiDataEPIC minfi
updated 8 months ago by • 0 • written 10 months ago by • 0
1
vote
2
replies
870
views
normalizatino of dna methylation EPIC data
DNA minfiData minfiDataEPIC DNAMethylation minfi
11 months ago user_bioinfo • 0
4
votes
8
replies
2.2k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
14 months ago • updated 11 months ago xiaofeiwang198266 • 0
1
vote
4
replies
1.1k
views
Handling Epic Array Data
minfi
14 months ago Melisa Tecik • 0
2
votes
2
replies
891
views
preprocessIllumina error with EPICv2 array
minfi EPICv2manifest
14 months ago Rakesh • 0
2
votes
5
replies
1.2k
views
dmpFinder for other objects
methylset minfi dmpFinder betaHMM beta
updated 16 months ago by 68k • written 16 months ago by • 0
0
votes
2
replies
1.1k
views
DMPs enrichment for MOUSE DNA methylation array
minfi mCSEA missme missMethyl
updated 17 months ago by • 0 • written 18 months ago by • 0
4
votes
12
replies
6.4k
views
How to get DMR for Infinium methylation EPIC v2
ChAMP DMRcate minfi
updated 18 months ago by ▴ 230 • written 2.2 years ago by ▴ 20
0
votes
1
reply
827
views
minfi - bumphunter value problem
bumphunter minfiData minfi bumphun
updated 19 months ago by 68k • written 19 months ago by • 0
0
votes
0
replies
801
views
Problem with MethylAid ("Cannot get Manifest object for an 'Unknown' array") and Epicv2
minfi EPICv2manifest MethylAid
19 months ago pcibin • 0
0
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2
replies
1.3k
views
Epicv2 conversion fail
minfi
19 months ago Alex • 0
2
votes
4
replies
3.5k
views
minfi latest update for EPIC V2 chip
minfi minfiDataEPIC
updated 7 months ago by • 0 • written 21 months ago by • 0
1
vote
4
replies
1.0k
views
minfi::read.metharray.exp
minfiData minfi
updated 21 months ago by ▴ 780 • written 21 months ago by • 0
0
votes
4
replies
1.2k
views
Minfi - estimatecellscount
min minfi
updated 21 months ago by 68k • written 22 months ago by • 0
0
votes
0
replies
831
views
Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi minfiDataEPIC
23 months ago Felix • 0
0
votes
1
reply
717
views
Matrix multiplication error to estimate telomere length
methylclockData minfi methylclock minfidata
updated 23 months ago by 68k • written 23 months ago by • 0
0
votes
7
replies
1.4k
views
error in reading idat files and creating rgset
minfi MethylationArray
updated 24 months ago by 68k • written 24 months ago by • 0
1
vote
2
replies
3.6k
views
EPIC array hg38 annotation?
minfi DMRcate
24 months ago mycetes • 0
0
votes
0
replies
1.4k
views
Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
2.1 years ago kyj2226 • 0
3
votes
2
replies
1.5k
views
What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)"?
SBE CpG minfi CpGinterrogation
2.2 years ago kyj2226 • 0
0
votes
1
reply
960
views
Error in reading my csv file in minfi
minfiDataEPIC minfi
updated 2.2 years ago by ▴ 780 • written 2.2 years ago by • 0
0
votes
5
replies
1.9k
views
minfi, limma, adjusting for cell counts - integrating the resoults of estimateCellCounts into the linear regression model
minfi limma
2.3 years ago dorota.komar • 0
0
votes
2
replies
1.7k
views
minfi differential methylation analysis errors
minfi
2.3 years ago matthew.sinton • 0
0
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3
replies
1.5k
views
minfi bumphunter - probe IDs
minfi bumphunter
updated 2.3 years ago by ▴ 780 • written 2.3 years ago by • 0
0
votes
14
replies
4.9k
views
Error while preprocessing raw data from methylation array using minfi package
minfi
updated 2.0 years ago by • 0 • written 2.4 years ago by • 0
1
vote
2
replies
1.6k
views
Two EPIC Methylation Array Analysis Questions
minfiDataEPIC minfi
written 2.4 years ago by ▴ 10
0
votes
3
replies
1.9k
views
Batch correction using control probes in EPIC array data
RnBeads minfiData minfi EPICarray
updated 2.7 years ago by ▴ 780 • written 2.7 years ago by ▴ 10
0
votes
2
replies
1.2k
views
ageData (minfi pipeline)
ageData missMethyl differentialvariability minfi
updated 22 months ago by • 0 • written 2.7 years ago by • 0
0
votes
1
reply
1.1k
views
LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 2.9 years ago by 53k • written 2.9 years ago by • 0
0
votes
0
replies
842
views
cpgCollapse error
450K blockfinder cpgCollapse minfi
2.9 years ago edward.esiribloom • 0
6
votes
6
replies
11k
views
minfi support of illumina Infinium methylationEPIC v2.0
methylationEPICv2.0 minfi
updated 16 months ago by • 0 • written 2.9 years ago by ▴ 50
0
votes
1
reply
1.2k
views
specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
0
votes
4
replies
2.1k
views
Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
1
vote
3
replies
1.8k
views
Analysing Genome Studio .txt files with minfi
minfi
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
0
votes
5
replies
2.4k
views
minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 2.9 years ago by • 0
0
votes
1
reply
1.5k
views
Minfi::read.metharray.sheet, problem with pattern defined in non-local csv file
PatternLogic read.metharray.sheet list.files minfi
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
2
votes
3
replies
2.3k
views
GSEA for paired methylation data
missMethyl GSEA minfi methylGSA
updated 3.1 years ago by ▴ 40 • written 3.1 years ago by • 0
0
votes
1
reply
1.7k
views
minfi read.metharray.sheet error
minfi
updated 3.2 years ago by 68k • written 3.2 years ago by • 0
0
votes
1
reply
1.9k
views
Density Plot using Noob Normalisation vs Quantile Normalisation
Quantile noob Normalization minfi minfiDataEPIC
updated 3.5 years ago by 68k • written 3.5 years ago by • 0
0
votes
0
replies
1.1k
views
A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
3.5 years ago calen.p.ryan • 0
0
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0
replies
1.1k
views
Error: 'bumphunter()' only supports matrix-backed minfi objects.
bumphunter minfi genomi
3.7 years ago runye • 0
0
votes
1
reply
1.6k
views
what is the format of DMPfinder in minfi package
minfi
updated 3.7 years ago by ▴ 780 • written 3.7 years ago by • 0
0
votes
3
replies
1.9k
views
methylated/unmethylated media threshold (EPIC assay)
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 ChAMP minfi
3.9 years ago • updated 3.7 years ago ramonfallon ▴ 20
0
votes
2
replies
3.8k
views
Illumina 450k Manifest: Probes Mapping to Multiple RefGene Groups and Names
illuminahumanmethylation450kanno.ilmn12.hg19 minfi illuminahumanmethylation450k.db methylation
updated 3.8 years ago by • 0 • written 10.4 years ago by ▴ 10
0
votes
0
replies
1.7k
views
Annotation Illumina Infinium Mouse Methylation
Illumina minfi IlluminaHumanMethylationEPICmanifest
3.8 years ago octaviompa • 0
0
votes
0
replies
967
views
Minfi package: controlStripPlot colors
minfi
4.0 years ago Rebecca • 0
0
votes
1
reply
1.6k
views
Over 800,000 probes failing to meet Detection P-value - minfi
IlluminaHumanMethylationEPICanno.ilm10b3.hg19 failingprobes detectionP minfi
updated 4.0 years ago by 68k • written 4.0 years ago by • 0
0
votes
9
replies
4.4k
views
clarification about bumphunter value output
minfi bumphunter
updated 2.7 years ago by • 0 • written 7.9 years ago by • 0
0
votes
1
reply
1.4k
views
EPIC ARRAY ANALYSIS
minfiDataEPIC #SexPrediction minfi
updated 4.3 years ago by ▴ 780 • written 4.3 years ago by • 0
0
votes
0
replies
1.3k
views
minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
4.5 years ago ponche_de_kiwi • 0
281 results • Page 1 of 6
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Comment: DiffBind plot.profile error by a2sahaaaq2c • 0
To resolve technical errors like installation failures or login issues, first ensure your device allows in the security settings and that…
Comment: soGGi error by shepherl 4.3k
We have tried to contact the soGGi maintainer to have them update the package to the newer version of gglot2 but they have so far been unre…
Comment: using limma trend workflow in CAMERA by Gordon Smyth 53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Comment: Questions about bacon QC and correction on EWAS results by Tikaaa2sahaaaq2c • 0
In the world of mobile games, the 88ef game download has gained traction for its performance driven design [free download][1], similar to …
Comment: using limma trend workflow in CAMERA by A.Barden ▴ 20
Do you need to set trend.var=TRUE when using camera in the limma-voom pipeline with RNA-Seq data (as apposed to limma-trend pipeline)?
Votes
Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
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