ADAM2.empiricalOdds: Empirical odds of number of fitness genes per number of cell...
In DepMap-Analytics/ADAM2: Adaptive Daisy Model
Description
Usage
Arguments
Value
Author(s)
See Also
Examples
Description
This function calculates log10 odd ratios of observed vs. expected profiles of cumulative number of fitness genes in fixed number of cell lines. Expected values are the mean of those observed across randomised version of the observed binary matrix.
Usage
1
2
ADAM2.empiricalOdds(observedCumSum,
simulatedCumSum)
Arguments
observedCumSum
Observed profile of cumulative sum of numbers of fitness genes in fixed number of cell lines. This is generated by the ADAM.panessprofile function.
simulatedCumSum
Random profiles of cumulative sum of fitness genes in fixed number of cell lines. This is generated by the function ADAM.generateNullModel.
Value
A named vector:
odds
log base 10 odd ratios of observed versus expected cumulative sums of number of fitness genes across fixed numbers of cell lines.
Author(s)
C. Pacini, E. Karakoc & F. Iorio
See Also
ADAM2.panessprofile, ADAM2.generateNullModel
Examples
1
2
3
4
5
data(exampleDepMat)
observed<-ADAM2.panessprofile(depMat=exampleDepMat)
null_m<-ADAM2.generateNullModel(depMat=exampleDepMat)
logOdds <- ADAM2.empiricalOdds(observedCumSum=observed$CUMsums,simulatedCumSum=null_m$nullCumSUM)
logOdds
DepMap-Analytics/ADAM2 documentation built on Dec. 1, 2019, 12:27 a.m.
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Description Usage Arguments Value Author(s) See Also Examples
Description
This function calculates log10 odd ratios of observed vs. expected profiles of cumulative number of fitness genes in fixed number of cell lines. Expected values are the mean of those observed across randomised version of the observed binary matrix.
Usage
1 2 | ADAM2.empiricalOdds(observedCumSum,
simulatedCumSum)
|
Arguments
observedCumSum |
Observed profile of cumulative sum of numbers of fitness genes in fixed number of cell lines. This is generated by the |
simulatedCumSum |
Random profiles of cumulative sum of fitness genes in fixed number of cell lines. This is generated by the function |
Value
A named vector:
odds |
log base 10 odd ratios of observed versus expected cumulative sums of number of fitness genes across fixed numbers of cell lines. |
Author(s)
C. Pacini, E. Karakoc & F. Iorio
See Also
ADAM2.panessprofile, ADAM2.generateNullModel
Examples
1 2 3 4 5 | data(exampleDepMat)
observed<-ADAM2.panessprofile(depMat=exampleDepMat)
null_m<-ADAM2.generateNullModel(depMat=exampleDepMat)
logOdds <- ADAM2.empiricalOdds(observedCumSum=observed$CUMsums,simulatedCumSum=null_m$nullCumSUM)
logOdds
|
R Package Documentation
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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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