Bioconductor RNA-Seq

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deseq2 edgeR rna-seq

updated 29 days ago by Elizabeth • 0 • written 8.9 years ago by gthm ▴ 30

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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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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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2.3k

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isoformswitchanalyzeR rna-seq splice-variants

written 5.1 years ago by saddamhusain77 • 0

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1.7k

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GeneExpression GenomicFeatures RNA-Seq TPM

updated 8 months ago by Gordon Smyth 50k • written 8 months ago by gingergeiger22 • 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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917

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correlation pearsoncorrelation rna-seq differential gene expression

updated 5 months ago by ATpoint ★ 4.1k • written 6.1 years ago by saad_k6 • 0

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892

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BatchEffect lfcshrink RNA-seq DESeq2

9 months ago Eva ▴ 10

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733

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RNA-seq DESeq2

7 months ago ar14g12 • 0

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710

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rna-seq salmon fishpond swish

updated 11 months ago by Michael Love 42k • written 11 months ago by samuelcjx • 0

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689

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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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368

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rna-seq edgeR

updated 27 days ago by Gordon Smyth 50k • written 5 weeks ago by Netanel • 0

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324

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RNA-Seq WGCNA Worms

5 months ago davca • 0

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257

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rna-seq duplicateCorrelation limma voom

9 days ago • updated 8 days ago Dylan.Sheerin • 0

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254

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RNA-seq DESeq2

updated 12 days ago by ATpoint ★ 4.1k • written 14 days ago by Reza • 0

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DESeq2 PCAplot RNA-Seq DesignModel

16 hours ago • updated 15 hours ago shaunpeterson • 0

16 results • Page 1 of 1

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Comment: Numerical differences in DESeq2 output depending on different design matrix cons by JKim • 0

The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.

Comment: Ensembl plants at annotationHub? by Daniele • 0

Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!

Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k

If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?

Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0

The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…

Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80

ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …

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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")

Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools

Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa

Rsubread counting peaks ATACseq

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