Bioconductor ColData

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DESeq2 design coldata

updated 18 months ago by swbarnes2 ★ 1.4k • written 18 months ago by arfranco ▴ 130

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ColData pheatmap DESeq2

written 2.4 years ago by dania.khalid • 0

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SingleCellExperiment colData rename

updated 2.7 years ago by Basti ▴ 780 • written 2.7 years ago by achoppe ▴ 10

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911

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BiSeq Coldata

5.4 years ago akhaira • 0

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deseq2 levels factor colData

updated 6.7 years ago by Michael Love 43k • written 6.7 years ago by ariel ▴ 20

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50k

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deseq2 coldata

updated 7.0 years ago by swbarnes2 ★ 1.4k • written 7.0 years ago by mjrarcher ▴ 10

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variantannotation coldata

updated 7.1 years ago by Valerie Obenchain ★ 6.8k • written 7.1 years ago by lvclark ▴ 10

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deseq2 coldata NA

updated 14 months ago by Michael Love 43k • written 7.2 years ago by t.kuilman ▴ 170

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multiassayexperiment colData

updated 7.9 years ago by Levi Waldron ★ 1.1k • written 7.9 years ago by Lluís Revilla Sancho ▴ 760

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Comment: deseq2 filter the low counts by Michael Love 43k

Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering

Comment: deseq2 filter the low counts by empty_mt • 0

Hi Michael, My matrix consists of 36 samples from 6 treatments (6 samples/ treatment), whether I adjust prefiltering parameters or not, in…

Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0

That works. I didn't realize what you said about HDF5 files. We always keep those and archive the MTX files. I'm able to read in the file…

Comment: DESeq2 interactions by Michael Love 43k

GPT even v4 gives pretty good answers to DESeq2 questions that are similar to those already posted on the support site. I've also noticed …

Answer: Important: Bioconductor Release 3.22 Delayed by shepherl 4.2k

We will continue with the release on Thursday October 30th. We have shifted one day as originally planned. Thank you

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Answer: DESeq2 interactions

Answer: Important: Bioconductor Release 3.22 Delayed

A: Multi-level experiments in Limma

Answer: Should voomWithQualityWeights still be used when the sample-specific weights var

Answer: DESeq2 for candidate gene analysis

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