Man pages for stephens999/ashr
Methods for Adaptive Shrinkage, using Empirical Bayes

ashAdaptive Shrinkage
ashciCredible Interval Computation for the ash object
ash_poisPerforms adaptive shrinkage on Poisson data
ashrashr
calc_loglikCompute loglikelihood for data from ash fit
calc_logLRCompute loglikelihood ratio for data from ash fit
calc_mixmeanGeneric function of calculating the overall mean of the...
calc_mixsdGeneric function of calculating the overall standard...
calc_null_loglikCompute loglikelihood for data under null that all beta are 0
calc_null_vloglikCompute vector of loglikelihood for data under null that all...
calc_vloglikCompute vector of loglikelihood for data from ash fit
calc_vlogLRCompute vector of loglikelihood ratio for data from ash fit
cdf.ashcdf method for ash object
cdf_convcdf_conv
cdf_postcdf_post
comp_cdfGeneric function of computing the cdf for each component
comp_cdf_convcomp_cdf_conv
comp_cdf_conv.normalmixcomp_cdf_conv.normalmix
comp_cdf_conv.unimixcdf of convolution of each component of a unif mixture
comp_cdf_postcomp_cdf_post
comp_densGeneric function of calculating the component densities of...
comp_dens_convcomp_dens_conv
comp_dens_conv.normalmixcomp_dens_conv.normalmix
comp_dens_conv.unimixdensity of convolution of each component of a unif mixture
comp_meanGeneric function of calculating the first moment of...
comp_mean2Generic function of calculating the second moment of...
comp_mean.normalmixcomp_mean.normalmix
comp_postmeancomp_postmean
comp_postmean2comp_postmean2
comp_postprobcomp_postprob
comp_postsdcomp_postsd
comp_sdGeneric function to extract the standard deviations of...
comp_sd.normalmixcomp_sd.normalmix
compute_lfsrFunction to compute the local false sign rate
cxxMixSquaremBrief description of function.
densFind density at y, a generic function
dens_convdens_conv
dlogfThe log-F distribution
estimate_mixpropEstimate mixture proportions of a mixture g given noisy...
gen_etruncFUNgen_etruncFUN
get_densityDensity method for ash object
get_lfdrReturn lfsr from an ash object
get_post_sampleSample from posterior
igmixConstructor for igmix class
lik_binomLikelihood object for Binomial error distribution
lik_logFLikelihood object for logF error distribution
lik_normalLikelihood object for normal error distribution
lik_normalmixLikelihood object for normal mixture error distribution
lik_poisLikelihood object for Poisson error distribution
lik_tLikelihood object for t error distribution
log_comp_dens_convlog_comp_dens_conv
log_comp_dens_conv.normalmixlog_comp_dens_conv.normalmix
log_comp_dens_conv.unimixlog density of convolution of each component of a unif...
loglik_convloglik_conv
loglik_conv.defaultloglik_conv.default
mixcdfmixcdf
mixcdf.defaultmixcdf.default
mixEMEstimate mixture proportions of a mixture model by EM...
mixIPEstimate mixture proportions of a mixture model by Interior...
mixmean2Generic function of calculating the overall second moment of...
mixpropGeneric function of extracting the mixture proportions
mixSQPEstimate mixture proportions of a mixture model using mix-SQP...
mixVBEMEstimate posterior distribution on mixture proportions of a...
my_e2truncbetasecond moment of truncated Beta distribution
my_e2truncgammasecond moment of truncated gamma distribution
my_e2truncnormExpected Squared Value of Truncated Normal
my_e2trunctmy_e2trunct
my_etruncbetamean of truncated Beta distribution
my_etruncgammamean of truncated gamma distribution
my_etrunclogfmy_etrunclogf
my_etruncnormExpected Value of Truncated Normal
my_etrunctmy_etrunct
my_vtruncnormVariance of Truncated Normal
ncompncomp
ncomp.defaultncomp.default
normalmixConstructor for normalmix class
pcdf_postpcdf_post
plogfThe log-F distribution
plot.ashPlot method for ash object
plot_diagnosticDiagnostic plots for ash object
pm_on_zeroGeneric function to extract which components of mixture are...
posterior_distCompute Posterior
postmeanpostmean
postmean2postmean2
post_samplepost_sample
post_sample.normalmixpost_sample.normalmix
post_sample.unimixpost_sample.unimix
postsdpostsd
print.ashPrint method for ash object
pruneprune
qval.from.lfdrFunction to compute q values from local false discovery rates
set_dataTakes raw data and sets up data object for use by ash
summary.ashSummary method for ash object
unimixConstructor for unimix class
vcdf_postvcdf_post
w_mixEMEstimate mixture proportions of a mixture model by EM...
stephens999/ashr documentation built on Feb. 27, 2020, 6:41 a.m.