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Question: Control group size
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gravatar for luke.zappia
10 months ago by
luke.zappia30
luke.zappia30 wrote:

Originally posted on GitHub https://github.com/Oshlack/splatter/issues/27

I have been using the following code to simulate different groups of single cells":

splatter_sim_1 <- splatSimulateGroups(groupCells = c(100, 100, 100, 100, 100), nGenes = 500, de.prob = c(0.05, 0.05, 0.05, 0.05, 0.05), de.facLoc = 3, de.facScale = 0, dropout.present = TRUE, seed = 1)

Since the update to R version 3.4 and the newest Bioconductor version this code gives an error:

Error in checkSlotAssignment(object, name, value) : ‘groupCells’ is not a slot in class “SplatParams”

I am not sure how to write code in the new version, which simulates different groups. Can someone help me?

ADD COMMENTlink modified 10 months ago • written 10 months ago by luke.zappia30
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gravatar for luke.zappia
10 months ago by
luke.zappia30
luke.zappia30 wrote:

Some of the parameters have changed in the latest release. You now want to use the batchCells and group.prob parameters. For example splatSimulateGroups(batchCells = 1000, group.prob(0.5, 0.3, 0.2)) would give you 1000 cells in three groups with probabilities of 0.5, 0.3 and 0.2. See the vignette and documentation for more details.

ADD COMMENTlink written 10 months ago by luke.zappia30
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