Bioconductor Rna-seq

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7.8k

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deseq2 edgeR rna-seq

updated 19 days ago by Elizabeth • 0 • written 8.8 years ago by gthm ▴ 30

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2.2k

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isoformswitchanalyzeR rna-seq splice-variants

written 5.1 years ago by saddamhusain77 • 0

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1.2k

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filtering RNA-Seq CPM edgeR filterByExpr

updated 11 months ago by Gordon Smyth 50k • written 11 months ago by mohammedtoufiq91 ▴ 10

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879

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BatchEffect lfcshrink RNA-seq DESeq2

9 months ago Eva ▴ 10

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717

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RNA-seq DESeq2

7 months ago • updated 6 months ago ar14g12 • 0

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1.6k

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GeneExpression GenomicFeatures RNA-Seq TPM

updated 7 months ago by Gordon Smyth 50k • written 7 months ago by gingergeiger22 • 0

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340

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rna-seq edgeR

updated 17 days ago by Gordon Smyth 50k • written 4 weeks ago by Netanel • 0

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183

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RNA-seq DESeq2

updated 2 days ago by ATpoint ★ 4.1k • written 4 days ago by Reza • 0

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691

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rna-seq salmon fishpond swish

updated 10 months ago by Michael Love 42k • written 10 months ago by samuelcjx • 0

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717

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RNA-Seq normalization PCR_efficiency bias intrasample_comparison

updated 12 months ago by James W. MacDonald 65k • written 12 months ago by FedeXander • 0

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661

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DEXSeq RNA-seq DESeq2

updated 8 months ago by Alejandro Reyes ★ 1.9k • written 8 months ago by Alice • 0

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861

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RNA-Seq sequencer library_size sequency_depth multiplexing offtopic

updated 12 months ago by James W. MacDonald 65k • written 12 months ago by FedeXander • 0

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3.5k

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RNA-seq featureCounts ht-seq

written 3.8 years ago by ag1805x ▴ 80

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1.2k

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gage rna-seq pathwayanalysis

updated 12 months ago by Rob • 0 • written 3.5 years ago by microPhD • 0

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315

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RNA-Seq WGCNA Worms

5 months ago davca • 0

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2.3k

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Spike-in RNASeqR DESeq2 Normalization rna-seq

updated 8 months ago by manuel.fernandez • 0 • written 2.1 years ago by cicely.day • 0

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910

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correlation pearsoncorrelation rna-seq differential gene expression

updated 4 months ago by ATpoint ★ 4.1k • written 6.1 years ago by saad_k6 • 0

17 results • Page 1 of 1

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Comment: Extremely small p-values using Limma for proteomic data by Robert Castelo ★ 3.3k

From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …

Comment: deseq2 results by ATpoint ★ 4.1k

> the results are not satisfactory to me Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…

Comment: Extremely small p-values using Limma for proteomic data by ATpoint ★ 4.1k

It's not an implementation problem I am discussing (it's trivial obviously) -- more that for most purposes the y-axis metric should be the …

Comment: Extremely small p-values using Limma for proteomic data by Robert Castelo ★ 3.3k

For visualization purposes you can draw an horizontal line at the p-value cutoff that meets the experiment-wide FDR cutoff. For instance, i…

Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k

Ask yourself the question how a gene that is exactly the same everywhere adds anything to any analysis. Heatmaps usually take DEGs to infer…

Votes

Answer: minfi latest update for EPIC V2 chip

A: Error in DESeqDataSet : some values in assay are not integers

Answer: Cannot connect to ExperimentHub server

Answer: confused with tximport counts abundance using salmon input

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call

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Scholar to Robert Castelo ★ 3.3k

Popular Question to Gyan Prakash Mishra ▴ 10