Biostar Zinbwave

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702

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edgeR DESeq2 single-cell scRNAseq zinbwave

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

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951

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DESeq2 ZINB zinbwave deseq

updated 24 months ago by Michael Love 39k • written 24 months ago by rowcyclecamp • 0

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350

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zinbwave PCA

2.3 years ago Assa Yeroslaviz ★ 1.5k

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913

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scRNA zinbwave batch IntegratedData

updated 2.4 years ago by davide risso ▴ 920 • written 2.4 years ago by Assa Yeroslaviz ★ 1.5k

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702

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deseq2 zinbwave 10X scRNA-seq Differential expression

updated 2.5 years ago by Michael Love 39k • written 2.5 years ago by vincent.croset ▴ 20

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2.3k

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cmdscale zinbwave scRNA-seq single cell sequencing RNA-seq

updated 2.6 years ago by davide risso ▴ 920 • written 2.6 years ago by Wagaa ▴ 10

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1.5k

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zinbwave deseq2 vegan

updated 3.2 years ago by James W. MacDonald 62k • written 3.2 years ago by zcbthug • 0

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654

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deseq2 glm zinbwave ruvseq

updated 4.1 years ago by Michael Love 39k • written 4.1 years ago by Jakub ▴ 50

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Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by k.roelfs • 0

I felt that my way of analyzing this data set was a bit unfortunate. I was not involved in the experimental design myself and am now trying…

Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by k.roelfs • 0

For tissue T1 and each time point, each replicate corresponds to a single plant. For tissue T2, we actually had to sample 5 plants per rep…

Answer: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by Gordon Smyth 47k

> Due to the high degree of heterozygosity of the plants used for the experiment, we thought it best to pool the same tissue under the same…

Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by Gordon Smyth 47k

How many plants are used for each of the biological replicate samples? One plant or a few?

Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by k.roelfs • 0

Yes you are right, we have 24 RNA-seq libraries in total. The replicates come from the same population of plants, but independent from tho…

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DESeq2 pairwise comparisons w/ 3 factors

A: DESeq2 pairwise comparisons w/ 3 factors

Comment: MA plot

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