Bioconductor ColData

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724

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DESeq2 design coldata

updated 7 months ago by swbarnes2 ★ 1.4k • written 7 months ago by arfranco ▴ 130

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841

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ColData pheatmap DESeq2

written 18 months ago by dania.khalid • 0

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1.5k

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SingleCellExperiment colData rename

updated 22 months ago by Basti ▴ 780 • written 22 months ago by achoppe ▴ 10

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731

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BiSeq Coldata

4.6 years ago akhaira • 0

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1.8k

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deseq2 levels factor colData

updated 5.8 years ago by Michael Love 43k • written 5.8 years ago by ariel ▴ 20

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46k

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deseq2 coldata

updated 6.1 years ago by swbarnes2 ★ 1.4k • written 6.1 years ago by mjrarcher ▴ 10

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3.6k

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variantannotation coldata

updated 6.2 years ago by Valerie Obenchain ★ 6.8k • written 6.2 years ago by lvclark ▴ 10

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4.2k

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deseq2 coldata NA

updated 4 months ago by Michael Love 43k • written 6.4 years ago by t.kuilman ▴ 170

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1.7k

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multiassayexperiment colData

updated 7.0 years ago by Levi Waldron ★ 1.1k • written 7.1 years ago by Lluís Revilla Sancho ▴ 760

9 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

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?

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

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