Bioconductor SimplesingleCell

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2.3k

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DropletUtils scRNA-seq emptyDrops simplesinglecell cell calling

updated 4.2 years ago by Aaron Lun ★ 28k • written 5.3 years ago by C T ▴ 140

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1.5k

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simpleSingleCell

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.4 years ago by Angelos Armen • 0

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841

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simpleSingleCell

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.4 years ago by Angelos Armen • 0

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5.0k

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DropletUtils EmptyDrops simpleSingleCell

updated 2.4 years ago by Stefano Mangiola ▴ 20 • written 5.4 years ago by shbrief ▴ 20

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1.9k

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scran simpleSingleCell

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.4 years ago by Angelos Armen • 0

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3.1k

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limma edgeR simplesingleCell scran scater

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.4 years ago by Bogdan ▴ 670

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1.9k

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SingleCellExperiment scran limma simpleSingleCell

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by Matt Mulé • 0

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1.9k

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DropletUtils SingleCellExperiement DelayedArray simpleSingleCell

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by Steve Pederson ▴ 170

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2.9k

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singlecellexperiment dropletutils simplesinglecell

updated 6.2 years ago by Aaron Lun ★ 28k • written 6.2 years ago by Peter Hickey ▴ 740

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1.0k

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workflows simplesinglecell

updated 6.3 years ago by Aaron Lun ★ 28k • written 6.3 years ago by es.azadian • 0

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simplesinglecell

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by Xingyu • 0

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scater singlecellexperiment simplesinglecell

updated 6.9 years ago by Aaron Lun ★ 28k • written 6.9 years ago by Xingyu • 0

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3.6k

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scater simpleSingleCell workflows

updated 7.5 years ago by Aaron Lun ★ 28k • written 7.5 years ago by sandmann.t ▴ 70

13 results • Page 1 of 1

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Votes

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

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