function Contents

% BN/PBN toolbox.
% November 30, 2005.
%
% The way of representing a BN/PBN in this toolbox is defined e.g. in
% pbnRnd.m
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% RUN NETWORKS.
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% bnNextState - one step of a Boolean Network
% bnRun - run a Boolean Network
% pbnNextState - one step of a PBN
% pbnRun - run a PBN
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% NETWORK STATISTICS.
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% bnDerridaCurve - Derrida curve
% bnStats - statistics of a Boolean Network
% ispercolating - check the percolation of a 2-D lattice
% pbnInfluence - Influence matrix of a PBN
% percolationcurve - percolation on a 2-D lattice
% wiringsquare - wiring for a square-lattice Boolean network
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% STATE TRANSITIONS & DISTRIBUTIONS.
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% bnA - state transition matrix a Boolean network
% bnAsparse - sparse state transition matrix a Boolean network
% bnAttractor - attractors and distances to the attractors
% bnAttractorMarkov - attractor proximity matrix
% pbnA - state transition matrix of a PBN
% pbnA_new - state transition matrix of a PBN
% pbnAij - transition prob. between two states
% pbnRunStationary
% pbnStationary - empirical stationary distribution
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% INFERENCE.
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% bnBestFit - Best-Fit inference
% bnBestFit_old - Gene regulatory network inference
% bnBootstrap - Bootstrap for Boolean Network inference
% bnBootstrap632 - .632 Bootstrap for Boolean Network inference
% bnCrossVal - Cross-validation for Boolean Network inference
% bnLOOCV - LOOCV for Boolean Network inference
% bnSteadyStateErrors - Predictor inference
% pbnBayesPred - Bayes predictors for a PBN
% pbnBayesPreds - Bayes predictors for a PBN
% pbnTrueErrors - True prediction error for steady-state
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% RANDOM QUANTITIES.
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% margpdf - joint marginal probability distribution
% pbnRnd - random BN/PBN
% pbnSampleSteadyState - a random sample from the steady state
% pmfrnd - sample a discrete distribution
% randintex - n random non-repeated integers between low and high
% rndA2
% rndcanalnew
% rndperm - random permutation of a set of integers
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% VISUALIZATION & PRINTING.
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% pbnDrawA - visualize a state transition matrix
% printPost
% SquareRun
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% INTERVENTION.
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% pbnFindFunc - alter the functions of a PBN
% pbnStateVisit - best gene for intervention
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% MEMBERSHIP TESTING & BOOLEAN FUNCTIONS.
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% buildB
% isA5
% isAinf
% isAinfSmall
% isAmu
% isAmuSmall
% iscanal
% isselfdual
% permutevars - Permute variables in a Boolean function
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% MISC.
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% makeK - matrix K