f8be19d1307b283cd96d9bc797f84896 *DESCRIPTION
0643871768fb5a9452d56d7a3b90baed *LICENSE
99cbac054a32e14f492bbff308b7d1b8 *NAMESPACE
8e2e68d6bdf70aa41b15f2bfadd466b8 *NEWS.md
459d4843d2ba69e4cf04a420b4369e24 *R/analysis.R
76f0401c803820d735f25a32fde35f95 *R/biomarkers.R
93c1944bb57200549da2c345d97210ab *R/diff.R
143b39f337deec6b98a19d55e1d4591f *R/emba.R
c41499be9631c9a1b8960ca8d46edf13 *R/general.R
4c1005f97a982c2d5321ae4110ef41a4 *R/input.R
6dc0f4c0d44ea27935f45f583a788f3d *R/output.R
d04c8fe7784a37f6a5cd99fb4775ae74 *R/plot.R
c3754b2138b1ea76588d72305e041ba6 *README.md
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
3e0ddaebb1333e6cdafec72b2abaf2ca *inst/extdata/observed_synergies
7ff504dc76e959ed97145bf6946df178 *man/add_numbers_above_the_bars.Rd
d22295f8d0f280be8a7b87a03604813a *man/assign_link_operator_value_to_equation.Rd
70afc50883fc8986f24f9526bc8b2d89 *man/biomarker_mcc_analysis.Rd
1f4b1102e1888624f5a8864d006bf7fd *man/biomarker_synergy_analysis.Rd
2cf5b5b8f1a64815bd0200c6b683e697 *man/biomarker_tp_analysis.Rd
3cdf58e1513d6026ca71681067dd928b *man/calculate_mcc.Rd
cf4bc54ad741c5486a87d33324dd8909 *man/calculate_models_mcc.Rd
7a189b5a0e52ed80c3693cef1ab1b47b *man/calculate_models_synergies_fn.Rd
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4e7ebd082ba13f7518a8da3d1dc33137 *man/calculate_models_synergies_tn.Rd
4d781c3255109768ed9aca2fc6fbccde *man/calculate_models_synergies_tp.Rd
c82019bfbadca78f2aa7de87d9f2d3a1 *man/construct_network.Rd
ca7bf791509b7aec1604fbc64af6a904 *man/count_models_that_predict_synergies.Rd
3144470d0284513ffc73bddc80b6eb22 *man/emba.Rd
8643cf0941a5947c16bb21b63202cdf5 *man/get_alt_drugname.Rd
fd09b66fa1efd5da4ded40d521621546 *man/get_avg_activity_diff_based_on_mcc_clustering.Rd
ac155da5d7d2016b28fd62de580f01b8 *man/get_avg_activity_diff_based_on_specific_synergy_prediction.Rd
09bb54acc646b9e0c0e1cd6e7a368d8a *man/get_avg_activity_diff_based_on_synergy_set_cmp.Rd
8cba6c470f2b425bc99e61e8b4e4108d *man/get_avg_activity_diff_based_on_tp_predictions.Rd
93e91333efe8e089c0504274c6b084e7 *man/get_avg_activity_diff_mat_based_on_mcc_clustering.Rd
fb550a5b582e8cf2babbfdfafa9a989e *man/get_avg_activity_diff_mat_based_on_specific_synergy_prediction.Rd
b2dd08c8d6fda6d132083484b17dcb26 *man/get_avg_activity_diff_mat_based_on_tp_predictions.Rd
d52fb07d5e16267a19363b47908a05ed *man/get_avg_link_operator_diff_mat_based_on_mcc_clustering.Rd
1388e667f9ddc1159f20248c915666df *man/get_avg_link_operator_diff_mat_based_on_specific_synergy_prediction.Rd
1bbbd19864554d2a32b2ad0c216b92f7 *man/get_avg_link_operator_diff_mat_based_on_tp_predictions.Rd
104083d6548457dc759f829bc9c53a02 *man/get_biomarkers.Rd
5ba20d1c26fa20a2256866f4692d0edb *man/get_biomarkers_per_type.Rd
990b66f385e8412bd32dee78742f8177 *man/get_edges_from_topology_file.Rd
d47274452e29c12a613f7f3a332cfc88 *man/get_fitness_from_models_dir.Rd
5baadbcf1df36661a0828ecb49c30dbd *man/get_link_operators_from_models_dir.Rd
74637d3ce9a5cf806e2d333c68029657 *man/get_model_names.Rd
c6ae7d61a9f5f1dc0b28921ee515e631 *man/get_model_predictions.Rd
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e53da9e8dcb2b9d3fe123413c64ef97f *man/get_node_colors.Rd
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4a9046cc83b1ade8d84eeb2360bb08be *man/get_observed_synergies.Rd
79e91b69f188e2ceb9a52f00246a9c29 *man/get_observed_synergies_per_cell_line.Rd
5b6024cc81d910e2206e624bad7eeb07 *man/get_perf_biomarkers_per_cell_line.Rd
b8a85a8bd14dc5a519850bb53dc1224e *man/get_stable_state_from_models_dir.Rd
5a5be1d76b298af561e9a504cfae738e *man/get_synergy_biomarkers_from_dir.Rd
138ae24356a259b566bb2226d42184fb *man/get_synergy_biomarkers_per_cell_line.Rd
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254e9c3b73736a7c9f463f9ebf34c775 *man/get_synergy_subset_stats.Rd
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7f538930a1ea378b89b26bcb7a5c683e *man/is_comb_element_of.Rd
9eeca9945b3a568b3227a1372b0d340d *man/make_barplot_on_models_stats.Rd
584689929322f05010bba58a40f6a454 *man/make_barplot_on_synergy_subset_stats.Rd
c1e364213198a09b2e230b870af36c8e *man/plot_avg_link_operator_diff_graph.Rd
ee95d5ffddc4240c6fa646ca526d912a *man/plot_avg_link_operator_diff_graphs.Rd
e38aae3f66e10bc5baac3aff102ba04f *man/plot_avg_state_diff_graph.Rd
63e2b45fab5f2575f513590b0ec7ab00 *man/plot_avg_state_diff_graph_vis.Rd
2217e09e545faf9c7671c1f2b798cc3a *man/plot_avg_state_diff_graphs.Rd
52c2f11764b324eae612b9250c6e964a *man/plot_mcc_classes_hist.Rd
cba3359153832dfc146590806907543d *man/print_biomarkers_per_predicted_synergy.Rd
51edabdb6fbcbbf40d3cb6ccda7b3d07 *man/print_model_and_drug_stats.Rd
125c7328d253e5093471003ad4b3e03c *man/update_biomarker_files.Rd
4f8673ba2b86e613da1554a4cce9bc27 *man/validate_observed_synergies_data.Rd
c4166a9afb9c086a629cd90d06c40428 *tests/testthat.R
4a1140ceb2de80386d007c34548ad624 *tests/testthat/test-analysis.R
761027cb49f3a50e98f10f88f028514e *tests/testthat/test-biomarkers.R
6481009728516dbaa4fa26cd59fffb76 *tests/testthat/test-diff.R
480ff5e0d65168b7a965941db3ee000e *tests/testthat/test-input.R
