SimReg: Similarity Regression

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Functions for performing Bayesian similarity regression, and evaluating the probability of association between sets of ontological terms and binary response vector. A random model is compared with one in which the log odds of a true response is linked to the semantic similarity between terms and a latent characteristic ontological profile.

Author
Daniel Greene
Date of publication
2016-10-15 18:51:56
Maintainer
Daniel Greene <dg333@cam.ac.uk>
License
GPL (>= 2)
Version
3.0

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Man pages

get_term_marginals
Calculate marginal probability of terms inclusion in 'phi'...
get_terms
Get full set of terms to use in inference procedure based on...
log_BF
Calculate log Bayes factor for similarity the model,...
plot.sim_reg_summary
Plot summary of 'sim_reg_output' object
plot_term_marginals
Create ontological plot of marginal probabilities of terms
print.sim_reg_output
Print 'sim_reg_output' object
print.sim_reg_summary
Print 'sim_reg_summary' object
prob_association
Calculate probability of association between 'y' and 'x'
sim_reg
Similarity regression
SimReg-package
Similarity Regression Functions
sum_log_probs
Calculate sum of log probabilities on log scale without...
summary.sim_reg_output
Get summary of 'sim_reg_output' object
term_marginals
Calculate marginal probability of terms inclusion in 'phi'

Files in this package

SimReg
SimReg/inst
SimReg/inst/doc
SimReg/inst/doc/SimReg-Introduction.R
SimReg/inst/doc/SimReg-Priors.html
SimReg/inst/doc/SimReg-Priors.Rmd
SimReg/inst/doc/SimReg-Introduction.html
SimReg/inst/doc/SimReg-Introduction.Rmd
SimReg/inst/doc/SimReg-Priors.R
SimReg/src
SimReg/src/fml.cpp
SimReg/src/bgml.cpp
SimReg/src/ml.cpp
SimReg/src/utils.h
SimReg/src/RcppExports.cpp
SimReg/NAMESPACE
SimReg/R
SimReg/R/generic.R
SimReg/R/plot.R
SimReg/R/phi-priors.R
SimReg/R/ml.R
SimReg/R/inference.R
SimReg/R/RcppExports.R
SimReg/R/pick.R
SimReg/vignettes
SimReg/vignettes/SimReg-Priors.Rmd
SimReg/vignettes/SimReg-Introduction.Rmd
SimReg/MD5
SimReg/build
SimReg/build/vignette.rds
SimReg/DESCRIPTION
SimReg/man
SimReg/man/print.sim_reg_summary.Rd
SimReg/man/get_term_marginals.Rd
SimReg/man/log_BF.Rd
SimReg/man/SimReg-package.Rd
SimReg/man/term_marginals.Rd
SimReg/man/prob_association.Rd
SimReg/man/plot.sim_reg_summary.Rd
SimReg/man/print.sim_reg_output.Rd
SimReg/man/sim_reg.Rd
SimReg/man/get_terms.Rd
SimReg/man/sum_log_probs.Rd
SimReg/man/plot_term_marginals.Rd
SimReg/man/summary.sim_reg_output.Rd