bc140e0600cb39613b9babc7b7ffc1ad *DESCRIPTION
0643871768fb5a9452d56d7a3b90baed *LICENSE
78a4dd0be2a4350bc85b50c4ea0e1bba *NAMESPACE
e40cbfb3ccd7e5f84ceef28cc0a68da5 *NEWS.md
459d4843d2ba69e4cf04a420b4369e24 *R/analysis.R
76f0401c803820d735f25a32fde35f95 *R/biomarkers.R
dc26d1fc31c5f7f01891528991980c69 *R/diff.R
143b39f337deec6b98a19d55e1d4591f *R/emba.R
1138612e7932e82bfc5aa1ec2e2c0561 *R/general.R
d02cb69aab031916ce9761d5b875c026 *R/input.R
6dc0f4c0d44ea27935f45f583a788f3d *R/output.R
d04c8fe7784a37f6a5cd99fb4775ae74 *R/plot.R
e8e336c0fc8c56f287e4438c9547fb38 *R/sysdata.rda
7c40fa0735b080a1350b4bd5222856be *README.md
7b0373340808bb6db956a1d7e8511152 *inst/extdata/ensemblewise_synergies
983545e0983f3fa3b184ec44bdeae307 *inst/extdata/model_predictions
3f6c264b41c9634b0463dbf3a9d074f0 *inst/extdata/models/test.gitsbe
fa2faf21840dc8f5fc00c8e2bfec5fd9 *inst/extdata/models/test2.gitsbe
ffd80ce0688ea05e8002838c092b68e0 *inst/extdata/models/test3.gitsbe
1dc19ac0656bb0524beebade20731cdd *inst/extdata/models_equations
a74bc8251fcc22cfc50f810f12176313 *inst/extdata/models_stable_state
0be2d14ed05ead7e4ca8906548937387 *inst/extdata/modelwise_synergies
3e0ddaebb1333e6cdafec72b2abaf2ca *inst/extdata/observed_synergies
7ff504dc76e959ed97145bf6946df178 *man/add_numbers_above_the_bars.Rd
d22295f8d0f280be8a7b87a03604813a *man/assign_link_operator_value_to_equation.Rd
c846457cd96c1369499b84b1d3a69150 *man/biomarker_mcc_analysis.Rd
f90a50fc6dd7c617e96f7f42174cab9c *man/biomarker_synergy_analysis.Rd
5063e369c9deb6a694125c3114845619 *man/biomarker_tp_analysis.Rd
be7f6b8249602c3d739a837e8ee39306 *man/calculate_mcc.Rd
b79e607f503557e3ae2133dc02559c58 *man/calculate_models_mcc.Rd
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f9f9ab621c9177b9f9337d2789a78b4c *man/calculate_models_synergies_fp.Rd
4c7e5936ccab259fc2dab005f47f36ac *man/calculate_models_synergies_tn.Rd
694e9c1ddb0a52d907432819b6b782c1 *man/calculate_models_synergies_tp.Rd
c82019bfbadca78f2aa7de87d9f2d3a1 *man/construct_network.Rd
ca7bf791509b7aec1604fbc64af6a904 *man/count_models_that_predict_synergies.Rd
566d31dc5f0871579bf5164a518573ed *man/emba.Rd
3c7f0de17557fb8da04c004d5c46b242 *man/filter_network.Rd
8643cf0941a5947c16bb21b63202cdf5 *man/get_alt_drugname.Rd
a748e22fdfb912c3568fe10c55d95b96 *man/get_avg_activity_diff_based_on_mcc_clustering.Rd
0ac169eb35be071b98b5bd37a4db81d4 *man/get_avg_activity_diff_based_on_specific_synergy_prediction.Rd
0b7dd9911cb9678af5efae4e7308915d *man/get_avg_activity_diff_based_on_synergy_set_cmp.Rd
356c0b58db9147731734e4f74ea58e41 *man/get_avg_activity_diff_based_on_tp_predictions.Rd
afa8a4ae333edec2fb25e3e5960e9737 *man/get_avg_activity_diff_mat_based_on_mcc_clustering.Rd
73e274599e238c514e48926608033be2 *man/get_avg_activity_diff_mat_based_on_specific_synergy_prediction.Rd
35c2be9ab390e404293fc39c82668a84 *man/get_avg_activity_diff_mat_based_on_tp_predictions.Rd
12c8135aebfba8181e0434d8e69777ed *man/get_avg_link_operator_diff_based_on_specific_synergy_prediction.Rd
dfdaf72cd765cbe50d9a96dab29f7f4c *man/get_avg_link_operator_diff_based_on_synergy_set_cmp.Rd
78a31ac333575627b641ebbdb88adb34 *man/get_avg_link_operator_diff_mat_based_on_mcc_clustering.Rd
12b574871d7ae13ed9e071e7e412f970 *man/get_avg_link_operator_diff_mat_based_on_specific_synergy_prediction.Rd
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a348c9e58bb40d62b09c5371ac62c064 *man/get_biomarkers.Rd
f87ca752d221d12c74a09d29f31352a0 *man/get_biomarkers_per_type.Rd
990b66f385e8412bd32dee78742f8177 *man/get_edges_from_topology_file.Rd
d47274452e29c12a613f7f3a332cfc88 *man/get_fitness_from_models_dir.Rd
d9bb5366c33f135af1a38ae95b3d5a7f *man/get_link_operators_from_models_dir.Rd
74637d3ce9a5cf806e2d333c68029657 *man/get_model_names.Rd
c6ae7d61a9f5f1dc0b28921ee515e631 *man/get_model_predictions.Rd
e241b7c40be6bef609e31dfeed2a9f4a *man/get_models_based_on_mcc_class_id.Rd
90aab170fb43ef71426d859f7d35ba04 *man/get_neighbors.Rd
e53da9e8dcb2b9d3fe123413c64ef97f *man/get_node_colors.Rd
e04c5970d2e4d6eeb95c13f09fc74886 *man/get_node_names.Rd
be4d3c49e0bba5dbf02c471ccdf606aa *man/get_observed_model_predictions.Rd
4a9046cc83b1ade8d84eeb2360bb08be *man/get_observed_synergies.Rd
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5b6024cc81d910e2206e624bad7eeb07 *man/get_perf_biomarkers_per_cell_line.Rd
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138ae24356a259b566bb2226d42184fb *man/get_synergy_biomarkers_per_cell_line.Rd
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168b1b19e2f9a6199a9e2c08f5a8d382 *man/get_synergy_scores.Rd
254e9c3b73736a7c9f463f9ebf34c775 *man/get_synergy_subset_stats.Rd
eb8ef53ce138010f69db4e3d96f00e65 *man/get_unobserved_model_predictions.Rd
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7f538930a1ea378b89b26bcb7a5c683e *man/is_comb_element_of.Rd
390a3ecd09a193cb4defa2f321d3b752 *man/make_barplot_on_models_stats.Rd
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2d27fb2e405a5e24b7f18b5dcb85ea94 *man/plot_avg_link_operator_diff_graph.Rd
d0b80f5424d7ff631c1f9f49238405a9 *man/plot_avg_link_operator_diff_graphs.Rd
1a0ff6e87634e54d8a58be43adc5643f *man/plot_avg_state_diff_graph.Rd
9dc874b3fbaee36e5fe60fa8d6d7575e *man/plot_avg_state_diff_graph_vis.Rd
7983d437bb1e50fd67eacf9d2cedea8b *man/plot_avg_state_diff_graphs.Rd
98a09ebe320573a1bfaef4ce70533257 *man/plot_mcc_classes_hist.Rd
7ad0b0914a1a8a29a31544fe84b5896b *man/print_biomarkers_per_predicted_synergy.Rd
51edabdb6fbcbbf40d3cb6ccda7b3d07 *man/print_model_and_drug_stats.Rd
82f385cb632ef430c36f278080cee9fa *man/update_biomarker_files.Rd
130722255826837dc0ad199f505c43f4 *man/validate_observed_synergies_data.Rd
c4166a9afb9c086a629cd90d06c40428 *tests/testthat.R
483b6d301a3359c45bc929fd42c43c22 *tests/testthat/test-analysis.R
761027cb49f3a50e98f10f88f028514e *tests/testthat/test-biomarkers.R
6481009728516dbaa4fa26cd59fffb76 *tests/testthat/test-diff.R
480ff5e0d65168b7a965941db3ee000e *tests/testthat/test-input.R
