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Rosetta
2019.12
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Rosetta
2019.12
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Functions | |
| BooleanOptionKey const | tcrmodel ("tcrmodel") |
| FileOptionKey const | ignore_list ("tcrmodel:ignore_list") |
| RealOptionKey const | blastp_identity_cutoff ("tcrmodel:blastp_identity_cutoff") |
| RealOptionKey const | template_identity_cutoff ("tcrmodel:template_identity_cutoff") |
| BooleanOptionKey const | include_ab_templates ("tcrmodel:include_ab_templates") |
| BooleanOptionKey const | dump_templates ("tcrmodel:dump_templates") |
| BooleanOptionKey const | skip_modeling ("tcrmodel:skip_modeling") |
| StringOptionKey const | ab_template_db_path ("tcrmodel:ab_template_db_path") |
| StringOptionKey const | tcr_template_db_path ("tcrmodel:tcr_template_db_path") |
| BooleanOptionKey const | minimize_model ("tcrmodel:minimize_model") |
| BooleanOptionKey const | relax_model ("tcrmodel:relax_model") |
| BooleanOptionKey const | remodel_loop_cdr3a ("tcrmodel:remodel_loop_cdr3a") |
| BooleanOptionKey const | remodel_loop_cdr3b ("tcrmodel:remodel_loop_cdr3b") |
| BooleanOptionKey const | remodel_tcr_cdr3a_loop ("tcrmodel:remodel_tcr_cdr3a_loop") |
| BooleanOptionKey const | remodel_tcr_cdr3b_loop ("tcrmodel:remodel_tcr_cdr3b_loop") |
| BooleanOptionKey const | refine_tcr_cdr3a_loop ("tcrmodel:refine_tcr_cdr3a_loop") |
| BooleanOptionKey const | refine_tcr_cdr3b_loop ("tcrmodel:refine_tcr_cdr3b_loop") |
| BooleanOptionKey const | remodel_tcr_cdr3_loops ("tcrmodel:remodel_tcr_cdr3_loops") |
| BooleanOptionKey const | refine_tcr_cdr3_loops ("tcrmodel:refine_tcr_cdr3_loops") |
| BooleanOptionKey const | refine_all_tcr_cdr_loops ("tcrmodel:refine_all_tcr_cdr_loops") |
| BooleanOptionKey const | use_user_templates ("tcrmodel:use_user_templates") |
| StringOptionKey const | alpha_framework_template_id ("tcrmodel:alpha_framework_template_id") |
| StringOptionKey const | beta_framework_template_id ("tcrmodel:beta_framework_template_id") |
| StringOptionKey const | alpha_germline_template_id ("tcrmodel:alpha_germline_template_id") |
| StringOptionKey const | beta_germline_template_id ("tcrmodel:beta_germline_template_id") |
| StringOptionKey const | alpha_cdr1_template_id ("tcrmodel:alpha_cdr1_template_id") |
| StringOptionKey const | beta_cdr1_template_id ("tcrmodel:beta_cdr1_template_id") |
| StringOptionKey const | alpha_cdr2_template_id ("tcrmodel:alpha_cdr2_template_id") |
| StringOptionKey const | beta_cdr2_template_id ("tcrmodel:beta_cdr2_template_id") |
| StringOptionKey const | alpha_cdr3_template_id ("tcrmodel:alpha_cdr3_template_id") |
| StringOptionKey const | beta_cdr3_template_id ("tcrmodel:beta_cdr3_template_id") |
| StringOptionKey const | alpha_orientation_template_id ("tcrmodel:alpha_orientation_template_id") |
| StringOptionKey const | beta_orientation_template_id ("tcrmodel:beta_orientation_template_id") |
| StringOptionKey const | alpha_framework_template_pdb ("tcrmodel:alpha_framework_template_pdb") |
| StringOptionKey const | beta_framework_template_pdb ("tcrmodel:beta_framework_template_pdb") |
| StringOptionKey const | alpha_germline_template_pdb ("tcrmodel:alpha_germline_template_pdb") |
| StringOptionKey const | beta_germline_template_pdb ("tcrmodel:beta_germline_template_pdb") |
| StringOptionKey const | alpha_cdr1_template_pdb ("tcrmodel:alpha_cdr1_template_pdb") |
| StringOptionKey const | beta_cdr1_template_pdb ("tcrmodel:beta_cdr1_template_pdb") |
| StringOptionKey const | alpha_cdr2_template_pdb ("tcrmodel:alpha_cdr2_template_pdb") |
| StringOptionKey const | beta_cdr2_template_pdb ("tcrmodel:beta_cdr2_template_pdb") |
| StringOptionKey const | alpha_cdr3_template_pdb ("tcrmodel:alpha_cdr3_template_pdb") |
| StringOptionKey const | beta_cdr3_template_pdb ("tcrmodel:beta_cdr3_template_pdb") |
| StringOptionKey const | alpha_orientation_template_pdb ("tcrmodel:alpha_orientation_template_pdb") |
| StringOptionKey const | beta_orientation_template_pdb ("tcrmodel:beta_orientation_template_pdb") |
| BooleanOptionKey const | use_alpha_germline_templates ("tcrmodel:use_alpha_germline_templates") |
| BooleanOptionKey const | use_beta_germline_templates ("tcrmodel:use_beta_germline_templates") |
| BooleanOptionKey const | assign_cdr ("tcrmodel:assign_cdr") |
| StringOptionKey const | assign_cdr1a ("tcrmodel:assign_cdr1a") |
| StringOptionKey const | assign_cdr2a ("tcrmodel:assign_cdr2a") |
| StringOptionKey const | assign_cdr3a ("tcrmodel:assign_cdr3a") |
| StringOptionKey const | assign_cdr1b ("tcrmodel:assign_cdr1b") |
| StringOptionKey const | assign_cdr2b ("tcrmodel:assign_cdr2b") |
| StringOptionKey const | assign_cdr3b ("tcrmodel:assign_cdr3b") |
| StringOptionKey const | anarci_path ("tcrmodel:anarci_path") |
| StringOptionKey const tcrmodel::ab_template_db_path | ( | "tcrmodel:ab_template_db_path" | ) |
| StringOptionKey const tcrmodel::alpha_cdr1_template_id | ( | "tcrmodel:alpha_cdr1_template_id" | ) |
| StringOptionKey const tcrmodel::alpha_cdr1_template_pdb | ( | "tcrmodel:alpha_cdr1_template_pdb" | ) |
| StringOptionKey const tcrmodel::alpha_cdr2_template_id | ( | "tcrmodel:alpha_cdr2_template_id" | ) |
| StringOptionKey const tcrmodel::alpha_cdr2_template_pdb | ( | "tcrmodel:alpha_cdr2_template_pdb" | ) |
| StringOptionKey const tcrmodel::alpha_cdr3_template_id | ( | "tcrmodel:alpha_cdr3_template_id" | ) |
| StringOptionKey const tcrmodel::alpha_cdr3_template_pdb | ( | "tcrmodel:alpha_cdr3_template_pdb" | ) |
| StringOptionKey const tcrmodel::alpha_framework_template_id | ( | "tcrmodel:alpha_framework_template_id" | ) |
| StringOptionKey const tcrmodel::alpha_framework_template_pdb | ( | "tcrmodel:alpha_framework_template_pdb" | ) |
| StringOptionKey const tcrmodel::alpha_germline_template_id | ( | "tcrmodel:alpha_germline_template_id" | ) |
| StringOptionKey const tcrmodel::alpha_germline_template_pdb | ( | "tcrmodel:alpha_germline_template_pdb" | ) |
| StringOptionKey const tcrmodel::alpha_orientation_template_id | ( | "tcrmodel:alpha_orientation_template_id" | ) |
| StringOptionKey const tcrmodel::alpha_orientation_template_pdb | ( | "tcrmodel:alpha_orientation_template_pdb" | ) |
| StringOptionKey const tcrmodel::anarci_path | ( | "tcrmodel:anarci_path" | ) |
| BooleanOptionKey const tcrmodel::assign_cdr | ( | "tcrmodel:assign_cdr" | ) |
| StringOptionKey const tcrmodel::assign_cdr1a | ( | "tcrmodel:assign_cdr1a" | ) |
| StringOptionKey const tcrmodel::assign_cdr1b | ( | "tcrmodel:assign_cdr1b" | ) |
| StringOptionKey const tcrmodel::assign_cdr2a | ( | "tcrmodel:assign_cdr2a" | ) |
| StringOptionKey const tcrmodel::assign_cdr2b | ( | "tcrmodel:assign_cdr2b" | ) |
| StringOptionKey const tcrmodel::assign_cdr3a | ( | "tcrmodel:assign_cdr3a" | ) |
| StringOptionKey const tcrmodel::assign_cdr3b | ( | "tcrmodel:assign_cdr3b" | ) |
| StringOptionKey const tcrmodel::beta_cdr1_template_id | ( | "tcrmodel:beta_cdr1_template_id" | ) |
| StringOptionKey const tcrmodel::beta_cdr1_template_pdb | ( | "tcrmodel:beta_cdr1_template_pdb" | ) |
| StringOptionKey const tcrmodel::beta_cdr2_template_id | ( | "tcrmodel:beta_cdr2_template_id" | ) |
| StringOptionKey const tcrmodel::beta_cdr2_template_pdb | ( | "tcrmodel:beta_cdr2_template_pdb" | ) |
| StringOptionKey const tcrmodel::beta_cdr3_template_id | ( | "tcrmodel:beta_cdr3_template_id" | ) |
| StringOptionKey const tcrmodel::beta_cdr3_template_pdb | ( | "tcrmodel:beta_cdr3_template_pdb" | ) |
| StringOptionKey const tcrmodel::beta_framework_template_id | ( | "tcrmodel:beta_framework_template_id" | ) |
| StringOptionKey const tcrmodel::beta_framework_template_pdb | ( | "tcrmodel:beta_framework_template_pdb" | ) |
| StringOptionKey const tcrmodel::beta_germline_template_id | ( | "tcrmodel:beta_germline_template_id" | ) |
| StringOptionKey const tcrmodel::beta_germline_template_pdb | ( | "tcrmodel:beta_germline_template_pdb" | ) |
| StringOptionKey const tcrmodel::beta_orientation_template_id | ( | "tcrmodel:beta_orientation_template_id" | ) |
| StringOptionKey const tcrmodel::beta_orientation_template_pdb | ( | "tcrmodel:beta_orientation_template_pdb" | ) |
| RealOptionKey const tcrmodel::blastp_identity_cutoff | ( | "tcrmodel:blastp_identity_cutoff" | ) |
| BooleanOptionKey const tcrmodel::dump_templates | ( | "tcrmodel:dump_templates" | ) |
| FileOptionKey const tcrmodel::ignore_list | ( | "tcrmodel:ignore_list" | ) |
| BooleanOptionKey const tcrmodel::include_ab_templates | ( | "tcrmodel:include_ab_templates" | ) |
| BooleanOptionKey const tcrmodel::minimize_model | ( | "tcrmodel:minimize_model" | ) |
| BooleanOptionKey const tcrmodel::refine_all_tcr_cdr_loops | ( | "tcrmodel:refine_all_tcr_cdr_loops" | ) |
| BooleanOptionKey const tcrmodel::refine_tcr_cdr3_loops | ( | "tcrmodel:refine_tcr_cdr3_loops" | ) |
| BooleanOptionKey const tcrmodel::refine_tcr_cdr3a_loop | ( | "tcrmodel:refine_tcr_cdr3a_loop" | ) |
| BooleanOptionKey const tcrmodel::refine_tcr_cdr3b_loop | ( | "tcrmodel:refine_tcr_cdr3b_loop" | ) |
| BooleanOptionKey const tcrmodel::relax_model | ( | "tcrmodel:relax_model" | ) |
| BooleanOptionKey const tcrmodel::remodel_loop_cdr3a | ( | "tcrmodel:remodel_loop_cdr3a" | ) |
| BooleanOptionKey const tcrmodel::remodel_loop_cdr3b | ( | "tcrmodel:remodel_loop_cdr3b" | ) |
| BooleanOptionKey const tcrmodel::remodel_tcr_cdr3_loops | ( | "tcrmodel:remodel_tcr_cdr3_loops" | ) |
| BooleanOptionKey const tcrmodel::remodel_tcr_cdr3a_loop | ( | "tcrmodel:remodel_tcr_cdr3a_loop" | ) |
| BooleanOptionKey const tcrmodel::remodel_tcr_cdr3b_loop | ( | "tcrmodel:remodel_tcr_cdr3b_loop" | ) |
| BooleanOptionKey const tcrmodel::skip_modeling | ( | "tcrmodel:skip_modeling" | ) |
| StringOptionKey const tcrmodel::tcr_template_db_path | ( | "tcrmodel:tcr_template_db_path" | ) |
| BooleanOptionKey const tcrmodel::tcrmodel | ( | "tcrmodel" | ) |
| RealOptionKey const tcrmodel::template_identity_cutoff | ( | "tcrmodel:template_identity_cutoff" | ) |
| BooleanOptionKey const tcrmodel::use_alpha_germline_templates | ( | "tcrmodel:use_alpha_germline_templates" | ) |
| BooleanOptionKey const tcrmodel::use_beta_germline_templates | ( | "tcrmodel:use_beta_germline_templates" | ) |
| BooleanOptionKey const tcrmodel::use_user_templates | ( | "tcrmodel:use_user_templates" | ) |
1.8.7