Biostar ResultsNames

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DESeq2 resultsNames lfcShrink

updated 6 months ago by ATpoint ★ 2.4k • written 6 months ago by eve.olszanowski • 0

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966

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resultsNames DESeq2 coefficient

23 months ago Jane • 0

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497

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resultsNames DESeq2

written 2.2 years ago by efratsh • 0

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582

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pairwise deseq2 extracting contrasts resultsnames results deseq2

updated 4.3 years ago by Michael Love 39k • written 4.3 years ago by Ricardo Rodrigues • 0

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739

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deseq2 resultsnames batch effect contrast

updated 5.5 years ago by Michael Love 39k • written 5.5 years ago by pkachroo ▴ 10

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deseq2 DESeq2 resultsNames

5.7 years ago davichen ▴ 10

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deseq2 resultsnames

updated 5.7 years ago by Michael Love 39k • written 5.7 years ago by mrigaya.mehra ▴ 10

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deseq2 rnaseq resultsnames

5.9 years ago zeynep.nenseth • 0

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DESeq deseq2 resultsnames

6.7 years ago akaever ▴ 30

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1.6k

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deseq2 resultsnames multifactorial design

updated 6.8 years ago by Michael Love 39k • written 6.8 years ago by Ira ▴ 10

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2.5k

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deseq2 relevel resultsNames multifactorial design

updated 7.1 years ago by Michael Love 39k • written 7.1 years ago by rclaire ▴ 20

11 results • Page 1 of 1

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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: DESeq2 lfcShrink: swapping reference gives different results for the same compar

Answer: Can I run DESeq2 with SMART-Seq data

Comment: RUVSeq and DESeq2 -- all variables in design formula must be columns in colData

A: Compare and filter two BAM files, one record at a time

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Teacher to Michael Love 39k