Bioconductor Encode

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529

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annotation software error ENCODE

updated 5.0 years ago by shepherl 4.1k • written 5.0 years ago by zhiyue.zhao • 0

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1.4k

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annotationhub bugs encode bed

7.9 years ago wcstcyx ▴ 30

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1.7k

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r chipseq encode peak

7.9 years ago Jurat Shahidin ▴ 80

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1.6k

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annotationhub encode

updated 8.6 years ago by Valerie Obenchain ★ 6.8k • written 8.7 years ago by Peter Hickey ▴ 740

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2.8k

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chiPseeker covplot ENCODE ChIpseq

9.6 years ago sarabusquets88 • 0

5 results • Page 1 of 1

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Answer: [How to construct a model.matrix ] by Gordon Smyth 51k

> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…

Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0

Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…

Comment: Merge Replicates vs Mixed Model by abadgerw • 0

@gabrielhoffman any insight?

Comment: makeContrastsDream for Interaction by abadgerw • 0

@gabrielhoffman any insight?

Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta by Michael Love 42k

That is the rows that did converge.

Votes

A: Some questions for remove batch effect by using mnnCorrect

A: Recommendations for combining multiple 10x runs into one SingleCellExperiment

Answer: [How to construct a model.matrix ]

Answer: Handling biological replicates in DESeq2

Comment: biomaRt rnorvegicus_gene_ensembl not available anymore

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Popular Question to Michael Stadler ▴ 350

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