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scran SingleCellExperiment scuttle scater

updated 3.3 years ago by Aaron Lun ★ 28k • written 3.3 years ago by enricoferrero ▴ 660

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scran scater scuttle

updated 3.7 years ago by Aaron Lun ★ 28k • written 3.7 years ago by enricoferrero ▴ 660

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scater SingleCellExperiment BiocParallel scuttle scran

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scuttle scater

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normalizeCounts scran librarySizeFactors scuttle scRNAseq

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scuttle scater SpatialExperiment

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scran bluster scater scuttle

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scuttle scater seurat SpatialExperiment

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8 results • Page 1 of 1

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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k

Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…

Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0

I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…

Answer: Cannabis and KEGGgraph by deeenes ▴ 30

Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…

Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k

I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…

Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10

Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…

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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

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Scholar to Robert Castelo ★ 3.2k

Popular Question to James W. MacDonald 65k