Showing : IlluminaHumanMethylationEPICmanifest • reset
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Seeking Strategies for Managing Duplicate CpG Entries in EPIC v2 Manifest
DNAMethylation EPICv2 IlluminaHumanMethylationEPICmanifest
updated 9 weeks ago by 65k • written 9 weeks ago by ▴ 10
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2
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698
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How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest ChAMP annotation
updated 11 months ago by 65k • written 11 months ago by • 0
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658
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Help with ENmix readidat
ENmix IlluminaHumanMethylationEPICmanifest
updated 23 months ago by 3.8k • written 23 months ago by • 0
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902
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Annotation Illumina Infinium Mouse Methylation
Illumina minfi IlluminaHumanMethylationEPICmanifest
2.0 years ago octaviompa • 0
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1
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1.4k
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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
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5
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2.1k
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How to pick Illumina EPIC Array probe IDs within a specific genomic region?
IlluminaHumanMethylationEPICmanifest
updated 2.2 years ago by • 0 • written 3.1 years ago by ▴ 10
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2
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1.3k
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IlluminaHumanMethylationEPIC array nSNPsRead and MethylSet probes
illuminaio illuminahumanmethylationepicmanifest minfi
updated 6.3 years ago by ★ 6.5k • written 6.3 years ago by ▴ 160
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2
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minfi MethylationEPIC errors
illuminahumanmethylationepicanno.ilmn10b.hg19 illuminahumanmethylationepicmanifest minfi limma 850k
7.1 years ago ceciliebucher • 0
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4.4k
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Installing MethylationEPIC minifest and annotation
minfi methylation illuminahumanmethylationepicmanifest illumina
8.1 years ago rasii • 0
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8
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3.7k
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minfi MethylationEPIC errors
minfi methylation IlluminaHumanMethylationEPICmanifest IlluminaHumanMethylationEPICanno.ilmn10b.hg19
updated 8.1 years ago by ★ 6.5k • written 8.1 years ago by ▴ 40
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Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
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Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
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Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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