Bioconductor Rna seq

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3.7k

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deseq2 mahattan plot RNA Seq

updated 4.5 years ago by bernatgel ▴ 150 • written 5.5 years ago by adeler001 • 0

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4.4k

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batch effect limma rna seq DE

updated 5.0 years ago by Steve Lianoglou ★ 13k • written 5.0 years ago by svlachavas ▴ 840

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1.2k

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RNA seq cpm

updated 5.0 years ago by Kevin Blighe ★ 4.0k • written 5.1 years ago by isabel.pieterse • 0

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1.3k

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sgseq alternative splicing rna seq

updated 9 months ago by Sara • 0 • written 5.4 years ago by 116100016 • 0

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1.2k

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edger RNA Seq

updated 5.4 years ago by James W. MacDonald 68k • written 5.4 years ago by abf ▴ 30

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718

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rna seq

5.4 years ago adeler001 • 0

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1.2k

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rna seq SGSeq Alternative splicing

updated 5.5 years ago by Leonard Goldstein ▴ 260 • written 5.5 years ago by 116100016 • 0

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732

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deseq2 likelihood ratio rna seq wald test

updated 5.6 years ago by Michael Love 43k • written 5.6 years ago by adeler001 • 0

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1.2k

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volcano plot rna seq

updated 5.7 years ago by Michael Love 43k • written 5.7 years ago by adeler001 • 0

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1.6k

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limma voom RNA Seq Time-course experiments

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by mahes.muniandy • 0

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1.5k

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RNA seq wgcna

updated 5.9 years ago by Peter Langfelder ★ 3.0k • written 5.9 years ago by agustin.gonvi ▴ 20

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2.5k

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rna seq trimmomatic trimming adapter trimming paired analysis

6.0 years ago Mozart ▴ 30

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2.0k

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heatmap.2 hierarchical clustering microarray RNA seq DEG

7.2 years ago lawarde.ankita1 ▴ 30

13 results • Page 1 of 1

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Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0

This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/

Comment: Filtering after DESeq by ATpoint ★ 4.8k

The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …

Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k

All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…

Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k

> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…

Answer: Check removeBatchEffect effectiveness by Gordon Smyth 52k

Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…

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Answer: DiffBind; Error: No sites have activity greater than filter value

DiffBind; Error: No sites have activity greater than filter value

remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline

How to remove X & Y chromosome genes from RNAseq data

Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?

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