Bioconductor Zinbwave

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1.8k

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edgeR DESeq2 single-cell scRNAseq zinbwave

updated 3.7 years ago by Aaron Lun ★ 28k • written 3.7 years ago by vincent.croset ▴ 20

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2.2k

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DESeq2 ZINB zinbwave deseq

updated 4.0 years ago by Michael Love 43k • written 4.0 years ago by rowcyclecamp • 0

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853

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zinbwave PCA

4.3 years ago Assa Yeroslaviz ★ 1.5k

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2.3k

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scRNA zinbwave batch IntegratedData

updated 4.4 years ago by davide risso ▴ 980 • written 4.4 years ago by Assa Yeroslaviz ★ 1.5k

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1.7k

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deseq2 zinbwave 10X scRNA-seq Differential expression

updated 4.5 years ago by Michael Love 43k • written 4.5 years ago by vincent.croset ▴ 20

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3.5k

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cmdscale zinbwave scRNA-seq single cell sequencing RNA-seq

updated 4.6 years ago by davide risso ▴ 980 • written 4.6 years ago by Wagaa ▴ 10

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2.6k

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zinbwave deseq2 vegan

updated 5.2 years ago by James W. MacDonald 67k • written 5.2 years ago by zcbthug • 0

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1.3k

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deseq2 glm zinbwave ruvseq

updated 6.1 years ago by Michael Love 43k • written 6.1 years ago by Jakub ▴ 50

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Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

I see. Thank you ATpoint!

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0

Thanks James!

Comment: Why select top highly expressed genes based on normalized counts, but then plot by ATpoint ★ 4.6k

I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…

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A: PDCD1 missing from TxDb.Hsapiens.UCSC.hg38.knownGene?

PDCD1 missing from TxDb.Hsapiens.UCSC.hg38.knownGene?

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Comment: can't install tscR

Answer: Csaw normalization strategies - general inquiry

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