Files in CimpleG

A Method to Identify Single CpG Sites for Classification and Deconvolution

README.md R/CimpleG.R R/fetch_cpg_annot.R R/param_checkup.R R/CimpleG-package.R R/data.R R/about.R R/helper_plot_functions.R R/save_load_helper.R R/plot.R R/input_data_check_prep.R R/mean_imput.R R/deconv_ranking_plot.R R/deconv_pred_obs_plot.R R/prep_summarizedexp_data.R R/deconvolution.R R/zzz.R R/globals.R R/make_deconv_pred_obs_data.R R/helper_functions.R inst/doc/generate-signatures.R inst/doc/save_load_objects.R inst/doc/save_load_objects.Rmd inst/doc/generate-signatures.Rmd tests/testthat.R tests/spelling.R tests/testthat/test1-CimpleG-decisiontree.R tests/testthat/test4-CimpleG-bruteforce.R tests/testthat/test2-CimpleG-elasticnet.R tests/testthat/test1-CimpleG-nnet.R tests/testthat/test-CimpleG.R tests/testthat/test8-CimpleG-save_load.R tests/testthat/test5-CimpleG-parab.R tests/testthat/test1-CimpleG-rf.R tests/testthat/test8-CimpleG-deconvolution.R tests/testthat/test8-CimpleG-plots.R tests/testthat/test8-CimpleG-parallel.R tests/testthat/test3-CimpleG-xgboost.R vignettes/save_load_objects.Rmd vignettes/generate-signatures.Rmd man/make_deconv_pred_obs_data.Rd man/run_deconvolution.Rd man/train_data.Rd man/test_data.Rd man/train_targets.Rd man/compute_ax.Rd man/select_features.Rd man/predict.CimpleG.Rd man/CimpleG.Rd man/dmsv_plot.Rd man/make_color_palette.Rd man/CimpleG-package.Rd man/make_deconv_ref_matrix.Rd man/lighten.Rd man/deconv_ranking_plot.Rd man/deconvolution_nnls.Rd man/darken.Rd man/diffmeans_sumvariance_plot.Rd man/get_cpg_annotation.Rd man/test_targets.Rd man/eval_test_data.Rd man/compute_diffmeans_sumvar.Rd man/save_object.Rd man/deconvolution_barplot.Rd man/deconvolution_epidish.Rd man/deconvolution_nmf.Rd man/signature_plot.Rd man/load_object.Rd man/deconv_pred_obs_plot.Rd