User: hamza_karakurt

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Posts by hamza_karakurt

<prev • 4 results • page 1 of 1 • next >
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Comment: C: Seurat to SingleCellExperiment Converting error in MAC
... Thank you so much. It worked. ...
written 4 weeks ago by hamza_karakurt0
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Seurat to SingleCellExperiment Converting error in MAC
... Hello everyone, I just started to work with MAC and using my own computer (Windows) as a tester. I am trying to convert a Seurat object to SingleCellExperiment with Convert function of Seurat package. It works in Windows but does not work in MAC. Also, is there a way in Scater package to read 10X ...
rnaseq single-cell singlecellexperiment written 4 weeks ago by hamza_karakurt0 • updated 4 weeks ago by Steve Lianoglou12k
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Comment: C: newSCESet and SingleCellExperiment basic differences and TMM Normalization
... Hey Aaron, Thank you for your answer. I will use calcNormFactors in scater. After this line, I need to multiply my SumFactors with my counts to normalize right? Or after computeSumFactors, directly normalize(sce) command does not do the job? I am working on unique barcoded single cell RNA-Seq.   ...
written 9 weeks ago by hamza_karakurt0
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newSCESet and SingleCellExperiment basic differences and TMM Normalization
... Hello everyone, I am trying to replicate a single cell RNA-Seq data analysis. Actually, the main problem is version. The old results were generated via newSCESet and normalized with normaliseExprs command (TMM method) but for the newest version of R, Bioconductor and packages so I used SingleCellEx ...

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