Bioconductor Delayedarray

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DESeq2 SummarizedExperiment SparseArray Install DelayedArray

updated 5 months ago by Michael Love 41k • written 5 months ago by eg226 • 0

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766

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DelayedArray

updated 7 months ago by Hervé Pagès 16k • written 8 months ago by Koki ▴ 10

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1.0k

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DelayedArray TileDBArray

7 months ago sandmann.t ▴ 70

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delayedarray rowsum

written 6.6 years ago by maltethodberg ▴ 170

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1.0k

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DelayedArray S4Arrays

updated 11 months ago by Hervé Pagès 16k • written 11 months ago by xiuwen.zheng • 0

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1.6k

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SummarizedExperiment S4Arrays DelayedArray

updated 10 months ago by Hervé Pagès 16k • written 11 months ago by Michael Steinbaugh ▴ 90

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1.8k

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HDF5Array DelayedArray

updated 6 months ago by Hervé Pagès 16k • written 2.6 years ago by Koki ▴ 10

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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…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10

Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k

I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…

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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

Comment: biomaRt : No lock file for BiocFileCache

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