Files in mxnorm

Apply Normalization Methods to Multiplexed Images

README.md R/normalize_mx_registration.R R/plot_mx_density.R R/get_long_data.R R/get_umap_data.R R/validate_method_override.R R/run_reduce_umap.R R/plot_mx_proportions.R R/summary.R R/utils-pipe.R R/normalize_mx_dataset.R R/get_discordance_thold.R R/run_var_proportions.R R/new_mx_dataset.R R/registration_helpers.R R/plot_mx_umap.R R/get_umap_reduction.R R/get_var_proportions.R R/plot_mx_discordance.R R/combat_helpers.R R/otsu_mx_discordance.R R/validate_var_proportions_params.R R/otsu_helpers.R R/global.R R/run_otsu_discordance.R R/validate_mx_normalize_params.R R/otsu_mx_dataset.R R/validate_reduce_umap_params.R R/validate_threshold_override.R R/normalize_mx_combat.R R/get_var_data.R R/transform_mx_dataset.R R/mx_sample.R R/trim_dataset.R R/get_otsu_tab.R R/mx_normalize.R R/mx_dataset.R R/validate_mx_dataset.R R/validate_otsu_discordance_params.R inst/doc/mxnorm-vignette.R inst/doc/mxnorm-vignette.Rmd tests/testthat.R tests/testthat/test-mx_normalize.R tests/testthat/test-plot_mx_discordance.R tests/testthat/test-mx_dataset.R tests/testthat/test-run_var_proportions.R tests/testthat/test-plot_mx_umap.R tests/testthat/test-run_otsu_discordance.R tests/testthat/test-plot_mx_proportions.R tests/testthat/test-plot_mx_density.R tests/testthat/test-run_reduce_umap.R vignettes/mxnorm-vignette.Rmd man/run_var_proportions.Rd man/summary.mx_dataset.Rd man/plot_mx_umap.Rd man/mx_normalize.Rd man/plot_mx_proportions.Rd man/plot_mx_discordance.Rd man/run_reduce_umap.Rd man/mx_sample.Rd man/plot_mx_density.Rd man/run_otsu_discordance.Rd man/print.summary.mx_dataset.Rd man/mx_dataset.Rd