Bioconductor MNN

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mnn batchelor scrna-seq seurat

updated 4.5 years ago by Aaron Lun ★ 28k • written 4.5 years ago by heir_of_isildur88 • 0

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batchelor mnn scrna-seq

updated 2.3 years ago by Guandong Shang ▴ 40 • written 4.9 years ago by heir_of_isildur88 • 0

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scRNA-Seq scater scran rna-seq MNN

updated 5.1 years ago by Aaron Lun ★ 28k • written 5.1 years ago by hamza_karakurt ▴ 60

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mnnCorect MNN

5.2 years ago • updated 5.1 years ago sharvari gujja ▴ 40

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Comment: lfcShrink and alpha value by cropero • 0

Thank you for your fast answer, I have everything clear now

Answer: DESeq2 - Comparing Comparisons by James W. MacDonald 67k

Assuming that WC in your equation #2 is different in KD1 subunit1_vs_WC and SCR subunit1_vs_WC, this is just an interaction, and the easies…

Comment: Differential Expression Genes as Independent Variables by James W. MacDonald 67k

An alternative to that is to use the `glmnet` package to fit a regularized regression using all proteins at once.

Comment: Differential Expression Genes as Independent Variables by abadgerw • 0

Thanks. The proposal was not to include all proteins as covariates in one model but to iterate with one protein serving as the independent …

Answer: How to annotate a limma Elist raw class object with an annotation file by James W. MacDonald 67k

Your first step when trying to use a function is to read the help page (`?mapIds`), which will bring this up: ``` Usage: colu…

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A: How to bin a GRanges to small bins

C: How to bin a GRanges to small bins

A: deseq2 filter the low counts

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