Bioconductor S4

Showing : S4 • reset

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2.6k

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lumi S4

9.1 years ago Chi Hong • 0

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722

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S4 deseq2

updated 5.2 years ago by swbarnes2 ★ 1.3k • written 5.2 years ago by shintzen • 0

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1.7k

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rnbeads error as.vector(data) s4vectors s4

8.6 years ago schasse • 0

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11k

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genomicranges grangeslist granges s4

updated 2.1 years ago by Hervé Pagès 16k • written 7.9 years ago by richierocks ▴ 40

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1.2k

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s4 coercion iranges integerlist

7.7 years ago jian_liangli • 0

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1.1k

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iranges integerlist s4

7.7 years ago Jurat Shahidin ▴ 80

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989

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S4 packages

updated 5.7 years ago by Michael Lawrence ★ 11k • written 5.7 years ago by lukaszbednarz ▴ 10

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1.0k

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s4 methods SummarizedExperiment

updated 5.2 years ago by Aaron Lun ★ 28k • written 5.2 years ago by brendan.innes ▴ 20

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996

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DBI S4 Biobase

updated 20 months ago by Hervé Pagès 16k • written 20 months ago by sandmann.t ▴ 70

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5.1k

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updated 9.0 years ago by Michael Lawrence ★ 11k • written 9.0 years ago by Koen Van den Berge ▴ 180

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788

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calcium imaging imaging s4

updated 4.1 years ago by shepherl 3.8k • written 4.1 years ago by muad.abdelhay ▴ 10

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830

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S4 Rcpp InteractionSet IRanges Rle

updated 3.9 years ago by Aaron Lun ★ 28k • written 3.9 years ago by lklei001 • 0

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979

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s4 generic

updated 5.2 years ago by Marcel Ramos 690 • written 5.2 years ago by Michael Steinbaugh ▴ 90

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1.0k

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s4 dataframe left_join merge

updated 5.0 years ago by Hervé Pagès 16k • written 5.0 years ago by Michael Steinbaugh ▴ 90

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650

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class S4

updated 4.2 years ago by Hervé Pagès 16k • written 4.2 years ago by Teun van den Brand • 0

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1.1k

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devtools S4 methods cache

5.4 years ago Michael Steinbaugh ▴ 90

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1.3k

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mclust s4vectors S4 as.matrix .FCS

7.8 years ago anara92 • 0

17 results • Page 1 of 1

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Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k

Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0

Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…

Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k

IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…

Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…

Votes

C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Answer: Interpret plot from DiffBind

Answer: How to retrieve gene ontology GO class from gene list?

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Supporter to JKim • 0