User: ankur.chakravarthy.10

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Posts by ankur.chakravarthy.10

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Answer: A: Cell type specific cell markers for Seurat based analysis.
... Hrishi, much of the power of single cell RNA-seq lies in the ability to detect rare or novel populations, and much of the literature on markers is often limited because of the small number of markers people were looking at in prior studies or the abundance of these populations in bulk data. No pre-d ...
written 5 days ago by ankur.chakravarthy.1010
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Normalizing vs RNA content in scRNAseq data
... Hi there,  I'm basically dealing with two scenarios here - one is using Census from Monocle2 to convert scRNAseq data with no spike-ins or spike-in normalisation using scran. My downstream workflow uses Seurat to carry out clustering, population discovery et cetera so I want to know if the best thi ...
monocle scran written 6 days ago by ankur.chakravarthy.1010 • updated 6 days ago by Aaron Lun15k
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limma-voom when testing differential expression of a subset of genes.
... Dear list users,  I am trying to test if a given, predefined set of genes is differentially expressed between two groups in an RNA-seq experiment (count data, using voom) . I am therefore interested in only evaluating the hypothesis of differential expression within my set, so as to limit the burde ...
limma voom differential gene expression written 2.0 years ago by ankur.chakravarthy.1010 • updated 2.0 years ago by Gordon Smyth30k

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