Showing : MethylationArrayData • reset
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Mismatch between Illumina Mouse Methylation BeadChip annotation and genome browsers (UCSC/Ensembl)
methylationArrayAnalysis MethylationArrayData
updated 8 months ago by 68k • written 8 months ago by • 0
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525
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Conumee for EPIC and EPICv2 copy number
conumee CopyNumberVariation MethylationArrayData
9 months ago Adam • 0
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360
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Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf minfiDataEPIC MethylationArrayData MethylationArray EPICv2manifest
10 months ago charlie.wright • 0
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2
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Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
10 months ago a.alkema • 0
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1
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378
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Unable to find sample sheet file for ChAMP methylation data analysis
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 10 months ago by 68k • written 10 months ago by • 0
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1
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712
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Annotating DMRs
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 15 months ago by 68k • written 15 months ago by ▴ 10
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624
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
21 months ago Giovanni Calice ▴ 160
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1.2k
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Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
2.0 years ago kyj2226 • 0
3
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6
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1.6k
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Methylation data analysis
MethylationArrayData methylationArrayAnalysis
2.1 years ago aldea85 • 0
1
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3
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1.3k
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Merging Methylation data (M-values) with phenotypic data
MethylationArrayData methylationArrayAnalysis
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
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1.1k
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Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
2.4 years ago Arianna • 0
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2
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1.4k
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How to perform a methylation analyisis from m values
MethylationArrayData methylationArrayAnalysis
2.5 years ago Irene • 0
1
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1
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1.1k
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 2.6 years ago by ▴ 40 • written 2.6 years ago by • 0
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6
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2.0k
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cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 2.6 years ago by ▴ 230 • written 2.7 years ago by • 0
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1.1k
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 2.7 years ago by 53k • written 2.7 years ago by • 0
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4
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2.0k
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 2.8 years ago by 68k • written 2.8 years ago by • 0
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5
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2.3k
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minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 2.8 years ago by • 0
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2
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2.5k
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ChAMP package:Error in cmdscale(d) : 'k' must be in {1, 2, .. n - 1}
MethylationArrayData
3.1 years ago shuangshuang • 0
2
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2
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2.0k
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Limma vs. lm for methylation data
limma MethylationArrayData MethylationArray
3.7 years ago fluentin44 • 0
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0
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1.1k
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filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
3.7 years ago Jitendra ▴ 10
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1.3k
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Problem loading Red channel idat files with champ.load
R MethylationArrayData ChAMP
4.1 years ago Paulina • 0
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0
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1.3k
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DNA methylation EPIC array and ChromHMM
chromhmmData MethylationArrayData
4.3 years ago macsue.jacques ▴ 10
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1.3k
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minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
4.4 years ago ponche_de_kiwi • 0
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6
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4.9k
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Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
4.4 years ago FWNL15 • 0
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1
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1.3k
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Error in reading metharray sheet
DifferentialMethylation MethylationArrayData
updated 4.5 years ago by ▴ 780 • written 4.5 years ago by • 0
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0
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1.6k
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How to get illumina CpG IDs by gene name?
MethylationArrayData RnBeads
4.8 years ago D ▴ 10
1
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4
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3.8k
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Unable to read in the IDAT files using read.metharray.exp()
MethylationArrayData methy Bioconductor minfi
4.8 years ago shweta • 0
1
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1
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3.3k
views
DMR Plot
dmr MethylationArrayData DMRcatedata
updated 5.1 years ago by 68k • written 5.1 years ago by • 0
28 results • Page 1 of 1
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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