Bioconductor Zero-inflated

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ruv ruvseq ruvnormalize single-cell zero-inflated

updated 5.8 years ago by davide risso ▴ 920 • written 5.8 years ago by Nik Tuzov ▴ 80

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DESeq2 microbiome zero-inflated

updated 6.9 years ago by Michael Love 40k • written 6.9 years ago by pjgalli2 • 0

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Comment: Question on constructing design matrix and defining contrasts for analysis by mohammedtoufiq91 ▴ 10

Sure, noted.

Comment: Question on constructing design matrix and defining contrasts for analysis by mohammedtoufiq91 ▴ 10

@gordonsmyth Yes, I realized while re-running through the WGCNA workflow and forget to account for the paired experiment. For general gene …

Comment: Question on constructing design matrix and defining contrasts for analysis by Gordon Smyth 47k

PS. Just as aside, using `dput` to show a data.frame is unnecessary overkill. Just typing `targetsframe` at the prompt would do the job.

Comment: Question on constructing design matrix and defining contrasts for analysis by Gordon Smyth 47k

> Basically, I want to create a design matrix and binarize by 0 and 1 to be used in WGCNA analysis to compare module between/within groups …

Comment: SummarizedExperiment is now warning on attach about `read_block` namespace confl by ansleyharralson • 0

Any estimate on when DelayedArray 0.26.3 will be released for macOS Binary (arm64)? Latest is still 0.26.02 best I can tell.

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WGCNA with paired samples

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Teacher to James W. MacDonald 63k