sampleMEPathways: Draws samples from a mutually exclusive pathway
In cbg-ethz/pathTiMEx: Joint Inference of Mutually Exclusive Driver Pathways and their Progression Dynamics
Description
Usage
Arguments
Details
Value
Author(s)
Description
sampleMEPathways simulates a group of mutually exclusive
genes, for given waiting times of genes, observation time, intensity of
mutual exclusivity and noise level.
Usage
1
sampleMEPathways(m, TGenesTrunc, Tobs, muTrunc, eps)
Arguments
m
number of samples to simulate, as a positive integer
TGenesTrunc
matrix with waiting times of the genes; columns represent
the genes, rows represent the samples
Tobs
vector of observation times, with length the number of samples
muTrunc
intensity of mutual exclusivity of the pathway to be
simulated, real number between 0 and 1
eps
error rate at the level of genes, real number between 0 and 1
Details
In the case of perfect mutual exclusivity (mu=1), for each
sample, only the gene with the waiting time can be mutated, and only if its
waiting time is lower than the observation time.
Value
a binary matrix representing the simulated mutually exclusive
group, with columns as genes and rows as samples
Author(s)
Simona Constantinescu, simona.constantinescu@bsse.ethz.ch
cbg-ethz/pathTiMEx documentation built on May 13, 2019, 2:03 p.m.
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Description Usage Arguments Details Value Author(s)
Description
sampleMEPathways simulates a group of mutually exclusive
genes, for given waiting times of genes, observation time, intensity of
mutual exclusivity and noise level.
Usage
1 | sampleMEPathways(m, TGenesTrunc, Tobs, muTrunc, eps)
|
Arguments
m |
number of samples to simulate, as a positive integer |
TGenesTrunc |
matrix with waiting times of the genes; columns represent the genes, rows represent the samples |
Tobs |
vector of observation times, with length the number of samples |
muTrunc |
intensity of mutual exclusivity of the pathway to be simulated, real number between 0 and 1 |
eps |
error rate at the level of genes, real number between 0 and 1 |
Details
In the case of perfect mutual exclusivity (mu=1), for each
sample, only the gene with the waiting time can be mutated, and only if its
waiting time is lower than the observation time.
Value
a binary matrix representing the simulated mutually exclusive group, with columns as genes and rows as samples
Author(s)
Simona Constantinescu, simona.constantinescu@bsse.ethz.ch
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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