Bioconductor DES

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272

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DESeq2 RUVSeq RUVseq BatchEffect DES

updated 1 day ago by James W. MacDonald 65k • written 1 day ago by Alexandre • 0

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120

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Des DESeq2

updated 14 days ago by hemantcnaik • 0 • written 14 days ago by Sahar • 0

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210

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DESeq2 DEs

6 weeks ago • updated 5 weeks ago feather-W • 0

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499

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DESeq2 des

updated 17 months ago by Michael Love 41k • written 17 months ago by Devin • 0

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557

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DES DESIGN

updated 19 months ago by Michael Love 41k • written 19 months ago by mike • 0

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607

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DESeq2 DES

updated 3.3 years ago by Michael Love 41k • written 3.3 years ago by heikki.sarin ▴ 10

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Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0

Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …

Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k

Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…

Answer: ATACseq merge peaks by ATpoint ★ 4.0k

That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…

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Answer: Math expression in shapeCustom legend in EnhancedVolcano

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length

Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

biomaRt error: database disk image is malformed

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