Description Usage Arguments Value Author(s)
This function optimizes vv, the strength parameter in the prior over the reference cancer profile. Note that we don't directly optimize vv because it has constraints (must be >=1 to guarantee real-valued likelihoods).
1 2 3 4 5 6 7 | ISOpureS2.model_optimize.opt_vv(
tumordata,
model,
NUM_ITERATIONS_RMINIMIZE,
iter,
NUM_GRID_SEARCH_ITERATIONS
)
|
tumordata |
a GxD matrix representing gene expression profiles of tumour samples |
model |
list containing all the parameters to be optimized |
NUM_ITERATIONS_RMINIMIZE |
minimum number of iteration that the minimization algorithm runs |
iter |
the iteration number |
NUM_GRID_SEARCH_ITERATIONS |
number of times to try restarting with different initial values |
The model with the vv parameter updated
Gerald Quon, Catalina Anghel, Francis Nguyen
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