LICENSE
README.md
setup.py
tcrdist/__init__.py
tcrdist/adpt_funcs.py
tcrdist/automate.py
tcrdist/background.py
tcrdist/breadth.py
tcrdist/centers.py
tcrdist/diversity.py
tcrdist/ecdf.py
tcrdist/gene_pairing_plot.py
tcrdist/html_colors.py
tcrdist/join.py
tcrdist/mappers.py
tcrdist/memory.py
tcrdist/neighbors.py
tcrdist/olga_directed.py
tcrdist/olga_load_model.py
tcrdist/paths.py
tcrdist/pgen.py
tcrdist/plotting.py
tcrdist/public.py
tcrdist/regex.py
tcrdist/rep_diff.py
tcrdist/rep_funcs.py
tcrdist/repertoire.py
tcrdist/repertoire_db.py
tcrdist/sample.py
tcrdist/setup_tests.py
tcrdist/sparse.py
tcrdist/speed.py
tcrdist/summarize.py
tcrdist/swap_gene_name.py
tcrdist/tabulate.py
tcrdist/translation.py
tcrdist/tree.py
tcrdist/vdjtools_funcs.py
tcrdist/data/__init__.py
tcrdist/data/covid19/__init__.py
tcrdist/data/covid19/m60_bkgd_test_input.csv
tcrdist/data/covid19/m60_test_input.csv
tcrdist/data/covid19/mira_epitope_10_2274_LSPRWYFYY_SPRWYFYYL.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_110_148_ELIRQGTDY_QELIRQGTDY_QELIRQGTDYKHW.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_111_146_AEIPKEEVKPF_ASKIITLKK_SASKIITLK.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_118_136_ALNTPKDHI_ATEGALNTPK.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_133_102_NQKLIANQF.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_140_92_NSSPDDQIGY_NTNSSPDDQIGYY_SSPDDQIGY_SSPDDQIGYY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_147_73_DLFMRIFTI_MDLFMRIFTI.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_155_59_RARSVSPKL_SVSPKLFIR.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_16_1683_QYIKWPWYI_YEQYIKWPW_YEQYIKWPWY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_176_44_SSTFNVPMEKLK.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_183_39_RIRGGDGKM_RIRGGDGKMK.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_185_39_ASQRVAGDSGFAAY_DSGFAAYSR_VAGDSGFAAY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_18_1578_FPNITNLCPF_QPTESIVRF_RFPNITNLCPF_TESIVRFPNI_VQPTESIVRF_VRFPNITNL.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_192_31_FQPTNGVGY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_1_8260_HTTDPSFLGRY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_29_1097_TVLSFCAFA_VLSFCAFAV.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_30_1064_KAYNVTQAF.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_37_818_FGEVFNATRF_FNATRFASVY_GEVFNATRF_NATRFASVY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_44_697_FPPTSFGPL.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_45_689_SYFTSDYYQL_VLHSYFTSDY_YFTSDYYQLY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_48_610_YLQPRTFL_YLQPRTFLL_YYVGYLQPRTF.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_51_546_AYKTFPPTEPK_KTFPPTEPK.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_53_532_NYLYRLFRK_NYNYLYRLF.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_55_524_ALRKVPTDNYITTY_KVPTDNYITTY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_55_524_ALRKVPTDNYITTY_KVPTDNYITTY.tcrdist3.csv.bE5ctrl.centers.csv
tcrdist/data/covid19/mira_epitope_55_524_ALRKVPTDNYITTY_KVPTDNYITTY.tcrdist3.csv.bE5ctrl.centers.csv.ranked_centers.tsv
tcrdist/data/covid19/mira_epitope_55_524_ALRKVPTDNYITTY_KVPTDNYITTY.tcrdist3.radius.csv
tcrdist/data/covid19/mira_epitope_67_382_APHGVVFL_APHGVVFLHV_GVVFLHVTY_VVFLHVTYV.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_70_345_DTDFVNEFYAY_NRDVDTDFVNEFY.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_90_216_GYQPYRVVVL_PYRVVVLSF_QPYRVVVL_QPYRVVVLSF.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_99_191_QECVRGTTVL.tcrdist3.csv
tcrdist/data/covid19/mira_epitope_9_2477_FLQSINFVR_FLQSINFVRI_FLYLYALVYF_GLEAPFLYLY_INFVRIIMR_LQSINFVRI_LQSINFVRII_QSINFVRII_SINFVRIIMR_VYFLQSINF_VYFLQSINFV_YFLQSINFVR_YLYALVYFL.tcrdist3.csv
tcrdist/db/__init__.py
tcrdist/db/adaptive_imgt_mapping.csv
tcrdist/db/alphabeta_gammadelta_db.tsv
tcrdist/db/combo_db.tsv
tcrdist/db/combo_xcr_2023-12-30.tsv
tcrdist/db/combo_xcr_2024-03-05.tsv
tcrdist/default_models/__init__.py
tcrdist/default_models/human_B_heavy/J_gene_CDR3_anchors.csv
tcrdist/default_models/human_B_heavy/V_gene_CDR3_anchors.csv
tcrdist/default_models/human_B_heavy/__init__.py
tcrdist/default_models/human_B_heavy/model_marginals.txt
tcrdist/default_models/human_B_heavy/model_params.txt
tcrdist/default_models/human_T_alpha/J_gene_CDR3_anchors.csv
tcrdist/default_models/human_T_alpha/V_gene_CDR3_anchors.csv
tcrdist/default_models/human_T_alpha/__init__.py
tcrdist/default_models/human_T_alpha/model_marginals.txt
tcrdist/default_models/human_T_alpha/model_params.txt
tcrdist/default_models/human_T_beta/J_gene_CDR3_anchors.csv
tcrdist/default_models/human_T_beta/V_gene_CDR3_anchors.csv
tcrdist/default_models/human_T_beta/__init__.py
tcrdist/default_models/human_T_beta/model_marginals.txt
tcrdist/default_models/human_T_beta/model_params.txt
tcrdist/default_models/mouse_T_alpha/J_gene_CDR3_anchors.csv
tcrdist/default_models/mouse_T_alpha/V_gene_CDR3_anchors.csv
tcrdist/default_models/mouse_T_alpha/__init__.py
tcrdist/default_models/mouse_T_alpha/model_marginals.txt
tcrdist/default_models/mouse_T_alpha/model_params.txt
tcrdist/default_models/mouse_T_beta/J_gene_CDR3_anchors.csv
tcrdist/default_models/mouse_T_beta/V_gene_CDR3_anchors.csv
tcrdist/default_models/mouse_T_beta/__init__.py
tcrdist/default_models/mouse_T_beta/model_marginals.txt
tcrdist/default_models/mouse_T_beta/model_params.txt
tcrdist/tests/__init__.py
tcrdist/tests/longtest_pgen_parallel.py
tcrdist/tests/longtest_simulate_cdr3_w_olga.py
tcrdist/tests/test_automatic.py
tcrdist/tests/test_background.py
tcrdist/tests/test_breadth.py
tcrdist/tests/test_bulkdata.py
tcrdist/tests/test_centers.py
tcrdist/tests/test_diversity.py
tcrdist/tests/test_downloads.py
tcrdist/tests/test_ecdf_example.py
tcrdist/tests/test_example_1.py
tcrdist/tests/test_example_10.py
tcrdist/tests/test_example_11.py
tcrdist/tests/test_example_12.py
tcrdist/tests/test_example_13.py
tcrdist/tests/test_example_14.py
tcrdist/tests/test_example_15.py
tcrdist/tests/test_example_16.py
tcrdist/tests/test_example_17.py
tcrdist/tests/test_example_18.py
tcrdist/tests/test_example_19.py
tcrdist/tests/test_example_2.py
tcrdist/tests/test_example_20.py
tcrdist/tests/test_example_21.py
tcrdist/tests/test_example_22.py
tcrdist/tests/test_example_23.py
tcrdist/tests/test_example_24_centers.py
tcrdist/tests/test_example_3.py
tcrdist/tests/test_example_4.py
tcrdist/tests/test_example_5.py
tcrdist/tests/test_example_6.py
tcrdist/tests/test_example_7.py
tcrdist/tests/test_example_8.py
tcrdist/tests/test_example_9.py
tcrdist/tests/test_gallery_hdiff.py
tcrdist/tests/test_introduction_1.py
tcrdist/tests/test_introduction_2.py
tcrdist/tests/test_introduction_3.py
tcrdist/tests/test_introduction_4.py
tcrdist/tests/test_introduction_5.py
tcrdist/tests/test_introduction_6.py
tcrdist/tests/test_join.py
tcrdist/tests/test_memory.py
tcrdist/tests/test_neighbors.py
tcrdist/tests/test_olga_synthetic.py
tcrdist/tests/test_out_of_memory_features.py
tcrdist/tests/test_pgen_1.py
tcrdist/tests/test_pgen_mouse.py
tcrdist/tests/test_public.py
tcrdist/tests/test_regex.py
tcrdist/tests/test_rep_funcs.py
tcrdist/tests/test_repertoire.py
tcrdist/tests/test_repertoire_db.py
tcrdist/tests/test_rhesus.py
tcrdist/tests/test_setup_tests.py
tcrdist/tests/test_sparse_pwrect.py
tcrdist/tests/test_summarize.py
tcrdist/tests/test_translation.py
tcrdist/tests/test_tree.py
tcrdist/tests/test_vdj_funcs.py
tcrdist/tests/test_workflow_1.py
tcrdist/tests/test_workflow_2.py
tcrdist3.egg-info/PKG-INFO
tcrdist3.egg-info/SOURCES.txt
tcrdist3.egg-info/dependency_links.txt
tcrdist3.egg-info/requires.txt
tcrdist3.egg-info/top_level.txt