Biostar Scran

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scran Normalization scRNA BatchEffect

28 days ago r_grau • 0

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343

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scran Clustering SingleCellExperiment annotate cluster

updated 5 months ago by James W. MacDonald 62k • written 5 months ago by achoppe • 0

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239

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scran DESeq2

updated 6 months ago by ATpoint ★ 2.0k • written 6 months ago by OE • 0

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449

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agpl license gpl scran

7 months ago • updated 5 months ago matthias-doering ▴ 30

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378

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SingleCellExperiment scran scater

updated 9 months ago by Basti ▴ 530 • written 9 months ago by Lucky • 0

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458

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normalizeCounts scran librarySizeFactors scuttle scRNAseq

11 months ago behr201 • 0

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422

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SingleCellExperiment scater ExperimentalDesign scran

11 months ago msn • 0

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2.4k

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scater scran singlecellexperiment normalize qc

updated 10 months ago by Dayme • 0 • written 3.8 years ago by kushshah ▴ 10

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2.4k

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scran scater Rtsne ggplot2 scRNA-Seq

updated 5 months ago by jamie.gearing ▴ 60 • written 3.9 years ago by hamza_karakurt ▴ 50

9 results • Page 1 of 1

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Comment: Empty ChipQC Report by Okan • 0

Hi, I have the same issue. Have you found any solution or any reason why this is happening?

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

Am I understanding correctly that you have 24 RNA-seq libraries in total, 6 from the pooled samples and 18 from regular samples with biolog…

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

I'm sorry, I know it is kinda confusing... We have 6 pools in total: Phenotype A: T1a, T2, T1b, T1c Phenotype B: T1, T2 Each pool consist…

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

Sorry, I don't understand your experiment. You are reading the edgeR Section on on what to do without replicates, but your experiment appe…

Answer: MA plot by Nathalie • 0

Thank you very much for your help and comments. There is errors in my file. BaseMean is BaseMeanLog2. I don't know how insert a file.

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Volcano Plot in R

Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.

Answer: MA plot

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