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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757

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DelayedArray

updated 6 months ago by Hervé Pagès 16k • written 8 months ago by Koki ▴ 10

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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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DelayedArray S4Arrays

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

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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: Which input file is used for DGEList in EgdeR? by i.atanasoai • 0

Understood, Thank you very much for the reply, very kind.

Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k

"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k

These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…

Comment: DEG with low counts by Michael Love 41k

These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…

Comment: DESeq filtering specific to contrasts by Michael Love 41k

If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…

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