Bioconductor VariantFiltering

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806

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VariantAnnotation VariantFiltering

13 months ago Bogdan ▴ 670

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548

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VariantFiltering

updated 16 months ago by Robert Castelo ★ 3.4k • written 16 months ago by Andrew Beggs ▴ 90

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1.9k

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RNAseq123 VariantFiltering Alignment VariantAnnotation

updated 2.0 years ago by James W. MacDonald 67k • written 2.0 years ago by Mohamed ▴ 30

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bioconductor variantfiltering

7.2 years ago Claus.Hultschig • 0

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variantannotation variantfiltering

updated 7.7 years ago by Michael Lawrence ★ 11k • written 7.7 years ago by Bogdan ▴ 670

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VariantFiltering

9.3 years ago claire.simpson • 0

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sequencing transcription variantfiltering annotation News

9.4 years ago Matthew Ritchie ▴ 1000

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variantfiltering phastcons

updated 9.6 years ago by Robert Castelo ★ 3.4k • written 9.6 years ago by Stefanie Tauber ▴ 40

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1.9k

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VariantFiltering VariantFiltering

10.5 years ago Robert Castelo ★ 3.4k

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Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by Robert Castelo ★ 3.4k

Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…

Answer: DESeq2 rerun returns different results by ATpoint ★ 4.5k

DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…

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?

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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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