Man pages for linnykos/eSVD2
eSVD2 for performing the eSVD-DE for cohort-wide differential expression analysis
| compute_posterior | Compute posterior according to Gamma-Poisson model |
| compute_posterior.default | Compute posterior according to Gamma-Poisson model for... |
| compute_posterior.eSVD | Compute posterior according to Gamma-Poisson model for eSVD... |
| compute_pvalue | Compute p-values |
| compute_test_statistic | Compute test statistics |
| compute_test_statistic.default | Compute test statistics for matrices |
| compute_test_statistic.eSVD | Compute test statistics for eSVD object |
| data_loader | Internal data loader function |
| dot-compute_df | Compute the degree of freedom |
| dot-reparameterize | Function to reparameterize two matrices |
| estimate_nuisance | Estimate nuisance values |
| estimate_nuisance.default | Estimate nuisance values for matrix or sparse matrices. |
| estimate_nuisance.eSVD | Estimate nuisance values for eSVD objects (i.e.,... |
| esvd_family | Internal Constructor for distribution family |
| fisher_test | Fisher's exact test |
| format_covariates | Format covariates |
| gandal_df | Gandal et al. results |
| generate_data | Generate data |
| generate_null | Generate null data |
| housekeeping_df | Hounkpe et al. housekeeping genes |
| initialize_esvd | Initialize eSVD |
| multtest | Perform multiple-testing adjustment using Efron's empirical... |
| opt_esvd | Optimize eSVD |
| opt_esvd.default | Optimize eSVD for matrices or sparse matrices. |
| opt_esvd.eSVD | Optimize eSVD for eSVD objects |
| opt_x | Optimize X given C, Y and Z |
| opt_yz | Optimize Y and Z given X and C |
| print.esvd_data_loader | Internal data loader function |
| reparameterization_esvd_covariates | Reparameterize eSVD object |
| sfari_df | SFARI genes |
| velmeshev_gene_df | Velmeshev et al. DEGs |
