Bioconductor Scuttle

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scuttle

updated 10 hours ago by Aaron Lun ★ 28k • written 1 day ago by Adam • 0

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scran bluster scater scuttle

updated 8 months ago by ATpoint ★ 4.6k • written 8 months ago by Dario Strbenac ★ 1.5k

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scuttle scater

updated 15 months ago by ATpoint ★ 4.6k • written 15 months ago by Abbi Edwards • 0

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scuttle scater seurat SpatialExperiment

22 months ago cathalgking ▴ 10

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938

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scuttle scater SpatialExperiment

updated 22 months ago by alan.ocallaghan ▴ 160 • written 23 months ago by cathalgking ▴ 10

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normalizeCounts scran librarySizeFactors scuttle scRNAseq

2.8 years ago behr201 • 0

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scater SingleCellExperiment BiocParallel scuttle scran

3.1 years ago enricoferrero ▴ 660

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scran SingleCellExperiment scuttle scater

updated 3.9 years ago by Aaron Lun ★ 28k • written 3.9 years ago by enricoferrero ▴ 660

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scran scater scuttle

updated 4.3 years ago by Aaron Lun ★ 28k • written 4.3 years ago by enricoferrero ▴ 660

9 results • Page 1 of 1

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Comment: pathview - multiple states by Philippine • 0

:D Thank you!!! It works perfectly.

Answer: lfcShrink and alpha value by Michael Love 43k

The code I sent just tells summary what threshold to use when printing the table.

Comment: Crossover design with limma by Marek Gierlinski ▴ 30

Thank you for your answer. It is an interesting solution. I've never though of modifying the design matrix itself - I always try to have a …

Comment: pathview - multiple states by Guido Hooiveld ★ 4.1k

According to the the help page of `pathview` (type `?pathview`) the input should be `either vector (single sample) or a matrix-like data (m…

Comment: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k

You can examine the structure of a `DelayedMatrix` by calling the `showtree()` function. For example: ``` library(scRNAseq) X <- fetchData…

Votes

Comment: pathview - multiple states

Answer: Crossover design with limma

Answer: Different PCA results when using rlog and vst transformations

Answer: contrast matrix design for a continuous variable

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