Biostar Batch effects

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386

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batch effects limma batch-correction RNAseq RUVseq

updated 2.0 years ago by James W. MacDonald 59k • written 2.0 years ago by bhakti.dwivedi • 0

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239

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limma batch effects linear model

updated 2.3 years ago by James W. MacDonald 59k • written 2.3 years ago by sandra.murphy ▴ 20

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802

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microarray combat sva batch effects

2.4 years ago anne.bozack • 0

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360

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MAST DEG batch effects

2.6 years ago chendianyu • 0

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260

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edger batch effects

updated 2.9 years ago by James W. MacDonald 59k • written 2.9 years ago by Victoria • 0

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744

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differential expression analysis ballgown r batch effects total number of reads

updated 3.6 years ago by James W. MacDonald 59k • written 3.6 years ago by amy16 • 0

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829

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sva svaseq batch effect batch effects batch effect correction

4.8 years ago vedran.franke • 0

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1.3k

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ComBat microarray batch effects

updated 4.8 years ago by James W. MacDonald 59k • written 4.8 years ago by DataFanatic • 0

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781

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deseq2 random effects batch effects RNA-seq rna-seq

updated 4.8 years ago by Michael Love 36k • written 4.8 years ago by Dipro • 0

9 results • Page 1 of 1

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Comment: rtracklayer S.h by gibran • 0

Thanks, much appreciated. So I think this approach actually gets binaries and I'm not sure how to isolate the problem I was experiencing as…

Comment: DESeq2, Calculate the size factor by using median-of-ratio by KEREN • 0

Hi Michael, thank you for you reply. My concern here mainly focus on the high variances in samples of condition "mESC_mRNA_WT". I observed…

Comment: DiffBind: 0 consensus peaks for dba.peakset: New bug / undocumented change intro by Rory Stark ★ 4.4k

I agree the documentation could be clearer -- it took me a while to understand what it said so I could address your issue!

Answer: DiffBind: 0 consensus peaks for dba.peakset: New bug / undocumented change intro by chrarnold • 0

Thanks a lot for your quick reply, it is very appreciated! Indeed, with your 2 suggested modifications, I can again reproduce the results f…

Answer: DiffBind: 0 consensus peaks for dba.peakset: New bug / undocumented change intro by Rory Stark ★ 4.4k

The object in the `.rds` file, `sampleMetaData.df`, is already a `DBA` object, with eight samples: > sampleMetaData.df <- readRDS("~/D…

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Answer: rtracklayer S.h

Answer: DESeq2: Extracting Averaged Counts Information from dds and rld

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