Bioconductor Sce

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5.3k

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sce SingleCellExperiment merge

updated 22 months ago by mollyab12 • 0 • written 2.7 years ago by achoppe ▴ 10

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2.2k

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SingleCellExperiment cluster identities sce

updated 4.6 years ago by Aaron Lun ★ 28k • written 4.6 years ago by reinepapillon • 0

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1.7k

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singlecellexperiment sce scater

updated 4.6 years ago by Aaron Lun ★ 28k • written 4.6 years ago by bharris • 0

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2.9k

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SingleCellExperiment scater sce quality control

updated 3.9 years ago by 1498554536 • 0 • written 4.8 years ago by Linda • 0

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1.9k

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sce markers single cell DE clusters

5.2 years ago ludmi.b • 0

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5.4k

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sce singlecellexperiment scRNAseq subsetting

updated 6.0 years ago by Aaron Lun ★ 28k • written 6.0 years ago by TJ • 0

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1.1k

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scater sce biotype R

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

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1.2k

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sce biomart annotation

updated 7.5 years ago by Mike Smith ★ 6.6k • written 7.5 years ago by linda.c.dansereau • 0

8 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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