Biostar Layout

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gviz grid layout

updated 4.3 years ago by Robert Ivanek ▴ 730 • written 4.3 years ago by alex.gos90 ▴ 10

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limma microarray layout

updated 4.2 years ago by Gordon Smyth 47k • written 4.2 years ago by Guillaume Robert • 0

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opossom layout error

5.9 years ago kimagure_ ▴ 10

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Comment: DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2? by Giulia • 0

Hi Rory, Thank you for your quick reply and advice on the matter. The following are the MAplots for the analysis using the background=TRU…

Answer: DESeq2 lfcShrink: swapping reference gives different results for the same compar by ATpoint ★ 2.4k

I asked the same some years back: https://support.bioconductor.org/p/p134551/#p134561

Comment: FlowSOM with unrelated channels by helucro ▴ 70

Could you perhaps comment one why you would want to include non-biological "unrelated" channels such as time and event length for clusterin…

Answer: DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2? by Rory Stark ★ 4.6k

It is unusual to see such a big difference between the two analysis methods, although it is more likely when you have only two replicates d…

Comment: Does DiffBind make consensus peaks sets for samples from a given condition (e.g. by Rory Stark ★ 4.6k

You need to call `dba.normalize()` twice, first to establish the normalization calculations, and the second time to retrieve them: cou…

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Comment: FlowSOM with unrelated channels

Answer: Can I run DESeq2 with SMART-Seq data

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Teacher to Michael Love 39k