Bioconductor Deseq2

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212

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DESeq2 timecoursedata GeneExpression

updated 15 hours ago by ATpoint ★ 4.1k • written 1 day ago by pangtaihin • 0

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DESeq2 DifferentialExpression

updated 1 day ago by Michael Love 42k • written 2 days ago by Kasper • 0

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DESeq2 normalization Normalization acrossspecies

updated 2 days ago by Michael Love 42k • written 3 days ago by piemmea • 0

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457

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DESeq2 pcaExplorer

updated 2 days ago by BioinfGuru ▴ 30 • written 3 days ago by Eric Katagirya • 0

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150

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DESeq2 eigencorplot PCAtools

3 days ago • updated 8 hours ago BioinfGuru ▴ 30

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151

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DESeq2 DifferentialExpression

updated 6 days ago by ATpoint ★ 4.1k • written 6 days ago by sajadahmad41454 • 0

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352

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DESeq2 DifferentialExpression rnaseqGene DifferentialRegulation

8 days ago • updated 5 days ago sajadahmad41454 • 0

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1.5k

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DESeq2 SpikeIn Normalization

updated 6 days ago by maria.soler • 0 • written 15 months ago by kalavattam ▴ 10

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Comment: Ensembl plants at annotationHub? by Daniele • 0

Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele

Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30

Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…

Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0

Thanks a lot!

Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150

Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…

Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa by Matthew Thornton ▴ 360

So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!

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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

Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?

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