contrast_matrix |
Create contrast matrix |
cov_canonical |
Compute a list of canonical covariance matrices |
cov_ed |
Perform "extreme deconvolution" (Bovy et al) on a subset of the data |
cov_flash |
Perform Empirical Bayes Matrix Factorization using flashier, and return a list of candidate covariance matrices |
cov_pca |
Perform PCA on data and return list of candidate covariance matrices |
cov_udi |
Compute a list of covariance matrices corresponding to the "Unassociated", "Directly associated" and "Indirectly associated" models |
estimate_null_correlation_simple |
Estimate null correlations (simple) |
extreme_deconvolution |
Density estimation using Gaussian mixtures in the presence of noisy, heterogeneous and incomplete data |
get_estimated_pi |
Return the estimated mixture proportions |
get_log10bf |
Return the Bayes Factor for each effect |
get_n_significant_conditions |
Count number of conditions each effect is significant in |
get_pairwise_sharing |
Compute the proportion of (significant) signals shared by magnitude in each pair of conditions, based on the poterior mean |
get_pairwise_sharing_from_samples |
Compute the proportion of (significant) signals shared by magnitude in each pair of conditions |
get_samples |
Return samples from a mash object |
get_significant_results |
Find effects that are significant in at least one condition |
mash |
Apply mash method to data |
mash_1by1 |
Perform condition-by-condition analyses |
mash_compute_loglik |
Compute loglikelihood for fitted mash object on new data. |
mash_compute_posterior_matrices |
Compute posterior matrices for fitted mash object on new data |
mash_compute_vloglik |
Compute vector of loglikelihood for fitted mash object on new data |
mash_estimate_corr_em |
Fit mash model and estimate residual correlations using EM algorithm |
mash_plot_meta |
Plot metaplot for an effect based on posterior from mash |
mash_set_data |
Create a data object for mash analysis. |
mash_update_data |
Update the data object for mash analysis. |
simple_sims |
Create some simple simulated data for testing purposes |
simple_sims2 |
Create some more simple simulated data for testing purposes |
sim_contrast1 |
Create simplest simulation, cj = mu 1 data used for contrast analysis |
sim_contrast2 |
Create simulation with signal data used for contrast analysis. |