summarize.batch {RPA} | R Documentation |
Summarize batch.
summarize.batch( q, set.inds, probe.parameters = list(), epsilon, verbose = FALSE, mc.cores = 1, summarize.with.affinities = FALSE )
q |
Background corrected, quantile-normalized, log2 probes x samples matrix |
set.inds |
Indices for each probeset, corresponding to q matrix |
probe.parameters |
A list, each element corresponding to a probe set. Each probeset element has the following elements: affinity, variance and optionally alpha and beta priors. Each of these elements contains a vector over the probeset probes, specifying the probe parameters according to the RPA model. If variances are given, that overrides the priors. |
epsilon |
Convergence tolerance. The iteration is deemed converged when the change in all parameters is < epsilon. |
verbose |
Print progress information during computation. |
mc.cores |
Number of cores for parallel processing |
summarize.with.affinities |
Use affinity estimates in probe summarization step. Default: FALSE. |
Leo Lahti leo.lahti@iki.fi
See citation("RPA")
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