testEnrich: Calculate significance of gene set enrichment
In saralinker/brainImageR: A Framework for visualizing gene set enrichment throughout neurodevelopment
Description
Usage
Arguments
Value
Examples
Description
testEnrich test the enrichment of the observed enrichment
Usage
1
testEnrich(composite, method = c("fisher", "bootstrap"))
Arguments
composite
Comp object returned from SpatialEnrichment.
method
character either "bootstrap" or "fisher"
Value
spatiotemporal prediction
Examples
1
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9
#brainImageR:::loadworkspace()
##First put together a gene list, or load in the default vth dataset
data(vth)
##Calculate the spatial enrichment.
#composite <- SpatialEnrichment(vth, reps = 20, refset = "developing")
##Calculate the significance estimates
#boot <- testEnrich(composite)
#boot <- boot[order(boot$FC, decreasing=TRUE),]
#head(boot)
saralinker/brainImageR documentation built on May 29, 2019, 1:51 p.m.
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Description Usage Arguments Value Examples
Description
testEnrich test the enrichment of the observed enrichment
Usage
1 | testEnrich(composite, method = c("fisher", "bootstrap"))
|
Arguments
composite |
Comp object returned from SpatialEnrichment. |
method |
character either "bootstrap" or "fisher" |
Value
spatiotemporal prediction
Examples
1 2 3 4 5 6 7 8 9 | #brainImageR:::loadworkspace()
##First put together a gene list, or load in the default vth dataset
data(vth)
##Calculate the spatial enrichment.
#composite <- SpatialEnrichment(vth, reps = 20, refset = "developing")
##Calculate the significance estimates
#boot <- testEnrich(composite)
#boot <- boot[order(boot$FC, decreasing=TRUE),]
#head(boot)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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