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Function to combine objects #7

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FelixTheStudent opened this issue Jun 10, 2021 · 0 comments
Open

Function to combine objects #7

FelixTheStudent opened this issue Jun 10, 2021 · 0 comments

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@FelixTheStudent
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combine() or similar in name

  • combines cellpypes objects, which is useful for pseudobulking and setting same thresholds for all samples
  • makes it easier to compute Differential expression
  • perhaps I could write a deseq <- function(obj, class) function, that returns obj again with DESeq2 results. Then one could start playing with plotting log-foldchanges against each other, e.g. for different marker gene sets or hierarchy levels.
    I propose that DE genes in scRNAseq are also something to explore, not a static inference result. While problematic for multiple testing correction (how to correct for interactively playing around until results are judged as good?), I like the idea that DE is also amenable to exploration.
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