Bioconductor Medip-seq

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280

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R medip-seq MEDIPS

7 months ago Luomeng • 0

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1.3k

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MEDIP-seq CNV TCGA450KHumanMethylationCalibrationDataset qsea PRAD

2.4 years ago • updated 2.3 years ago rtrivedi1 ▴ 10

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974

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MEDIPS MeDIP-seq

updated 2.0 years ago by Lukas ▴ 20 • written 3.9 years ago by lshepard ▴ 40

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652

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medip-seq createset

updated 4.7 years ago by Bioconductor Community 0 • written 4.8 years ago by oussama.badad • 0

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772

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medips medip-seq dna methylation dmr analysis

updated 4.8 years ago by Lukas Chavez ▴ 570 • written 4.8 years ago by mtefit • 0

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662

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medip-seq methylation CpGs

4.9 years ago saripalligautam86 ▴ 10

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1.5k

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medips bsgenome medip-seq

updated 5.5 years ago by Lukas Chavez ▴ 570 • written 5.5 years ago by vjain • 0

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5.7k

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diffbind medip-seq edger deseq2

updated 5.9 years ago by Rory Stark ★ 5.0k • written 7.5 years ago by florian.noack ▴ 60

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1.7k

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R medips medip-seq

7.1 years ago • updated 6.3 years ago stb • 0

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1.3k

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medips medip-seq error lukas

updated 6.4 years ago by Matthias Lienhard ▴ 230 • written 6.4 years ago by anupriyaverma1408 • 0

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1.0k

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medips medip-seq peak finding luckas

updated 6.4 years ago by Lukas Chavez ▴ 570 • written 6.4 years ago by anupriyaverma1408 • 0

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938

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medips R medip-seq pair-end reads

updated 6.8 years ago by Lukas Chavez ▴ 570 • written 6.8 years ago by stb • 0

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883

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medips medip-seq R pair-end reads

updated 7.0 years ago by Lukas Chavez ▴ 570 • written 7.0 years ago by stb • 0

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1.2k

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R medip-seq medips bwa

updated 7.1 years ago by Lukas Chavez ▴ 570 • written 7.1 years ago by stb • 0

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1.1k

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annotation chippeakanno rattus norvegicus medip-seq

7.6 years ago Vang Le ▴ 80

15 results • Page 1 of 1

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Comment: DataFrame Construction With Non-standard Column by Hervé Pagès 16k

SimpleList is a List derivative and List derivatives in general don't need protection. For example, a GRangesList object (which is also a L…

Answer: Deseq2, how to model design for comparing Mutant mouse at age 14 days versus Mu by swbarnes2 ★ 1.3k

The Status grouping you show above is good to use if you want to simply compare one subset of samples to another subset. The ~Genotype +…

Answer: Remove duplicates of colData in TreeSummarizedExperiment by Michael Love 40k

Copying my code from Slack for posterity. James' code is more streamlined for this step I think. ``` # make a dataset that has duplicate s…

Comment: DataFrame Construction With Non-standard Column by James W. MacDonald 63k

Oh, ok. I understand. Technically both should work according to what the help page for `DataFrame` says (both `SimpleList` and `list` have …

Comment: DeSeq2 design fails (full model matrix is less than full rank) by Basti ▴ 720

As recommended, you can only perform ~group. You can use contrasts do perform the comparison AA5 vs FHIN1 (see [DESeq2 vignette][1]), but t…

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Answer: Further analysis after limma regression output

A: collapseReplicates in DESeq2

Answer: DataFrame Construction With Non-standard Column

Steps needed to change design (relevel factors) in DESeq2

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