Summarize an msets Object

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Description

This function outputs summary statistics of a msets object.

Usage

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## S3 method for class 'msets'
summary(object, degree=NULL, ...)

Arguments

object

a msets object.

degree

a vector of intersection degrees to pull out.

...

additional arguments (not implemented).

Value

A list:

Barcode

a vector of 0/1 character strings, representing the set composition of each intersection.

otab

a vector of observed intersection size between any combination of sets.

etab

a vector of expected intersection size between any combination of sets if background population size is specified.

set.names

set names.

set.sizes

set sizes.

n

background population size.

P.value

upper tail p value for each intersection if background population size n is specified.

Table

a data.frame containing degree, otab, etab, fold change, p value and the overlap elements.

Author(s)

Minghui Wang <minghui.wang@mssm.edu>, Bin Zhang <bin.zhang@mssm.edu>

References

Minghui Wang, Yongzhong Zhao, and Bin Zhang (2015). Efficient Test and Visualization of Multi-Set Intersections. Scientific Reports (In press).

See Also

msets

Examples

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##not run###
#fake data
#x=list(S1=letters[1:20],S2=letters[10:26],S3=sample(letters,10),
# S4=sample(letters,10))
#obj=supertest(x,n=26)
#summary(obj)