LICENSE
MANIFEST.in
README.md
pyproject.toml
setup.cfg
SHEPHARD.egg-info/PKG-INFO
SHEPHARD.egg-info/SOURCES.txt
SHEPHARD.egg-info/dependency_links.txt
SHEPHARD.egg-info/not-zip-safe
SHEPHARD.egg-info/requires.txt
SHEPHARD.egg-info/top_level.txt
shephard/.DS_Store
shephard/__init__.py
shephard/_version.py
shephard/domain.py
shephard/exceptions.py
shephard/general_utilities.py
shephard/protein.py
shephard/proteome.py
shephard/sequence_utilities.py
shephard/site.py
shephard/test_domains_sites.py
shephard/track.py
shephard/apis/__init__.py
shephard/apis/albatross_api.py
shephard/apis/fasta.py
shephard/apis/metapredict_api.py
shephard/apis/uniprot.py
shephard/data/README.md
shephard/data/look_and_say.dat
shephard/data/test_data/TS1_domains_idr.tsv
shephard/data/test_data/TS1_domains_idr_and_others.tsv
shephard/data/test_data/TS1_domains_pscore.tsv
shephard/data/test_data/TS1_protein_attributes.tsv
shephard/data/test_data/TS1_protein_attributes_several.tsv
shephard/data/test_data/TS1_sites.tsv
shephard/data/test_data/TS1_small_proteins.tsv
shephard/data/test_data/TS1_tracks_pscore.tsv
shephard/data/test_data/names.txt
shephard/data/test_data/seqs.fasta
shephard/data/test_data/testset_1.fasta
shephard/data/test_data/testset_1.fasta.fai
shephard/data/test_data/testset_1_ptms.tsv
shephard/data/test_data/ts1_bonus_sites.tsv
shephard/data/test_data/ts1_bonus_sites_bad.tsv
shephard/data/test_data/ts1_bonus_sites_bad2.tsv
shephard/data/test_data/tst.py
shephard/interfaces/__init__.py
shephard/interfaces/interface_tools.py
shephard/interfaces/si_domains.py
shephard/interfaces/si_protein_attributes.py
shephard/interfaces/si_proteins.py
shephard/interfaces/si_sites.py
shephard/interfaces/si_tracks.py
shephard/tests/__init__.py
shephard/tests/conftest.py
shephard/tests/example_test_function.py
shephard/tests/test_DomainInterface.py
shephard/tests/test_ProteinAttributesInterface.py
shephard/tests/test_ProteinInterface.py
shephard/tests/test_SiteInterface.py
shephard/tests/test_TrackInterface.py
shephard/tests/test_add_remove_annotations.py
shephard/tests/test_api_albatross.py
shephard/tests/test_api_metapredict.py
shephard/tests/test_apis_fasta.py
shephard/tests/test_attribute_tools.py
shephard/tests/test_domain_tools.py
shephard/tests/test_domains.py
shephard/tests/test_interfaces.py
shephard/tests/test_logic.py
shephard/tests/test_protein.py
shephard/tests/test_protein_site_functions.py
shephard/tests/test_proteome.py
shephard/tests/test_scratchpad.ipynb
shephard/tests/test_sequence_tools.py
shephard/tests/test_shephard.py
shephard/tests/test_si_domains.py
shephard/tests/test_si_sites.py
shephard/tests/test_si_tracks.py
shephard/tests/test_sites.py
shephard/tests/test_track_tools.py
shephard/tests/test_tracks.py
shephard/tests/.ipynb_checkpoints/test_scratchpad-checkpoint.ipynb
shephard/tests/output_test/all_symbols_test.tsv
shephard/tests/output_test/all_values_test.tsv
shephard/tests/output_test/all_values_test_from_list.tsv
shephard/tests/output_test/out_tracks.tsv
shephard/tests/output_test/readme.md
shephard/tests/output_test/shephard_track_phosres.tsv
shephard/tests/output_test/shephard_track_pscore.tsv
shephard/tests/output_test/test_domains.tsv
shephard/tests/output_test/test_domains_types.tsv
shephard/tests/output_test/test_sites.tsv
shephard/tests/output_test/track_phospho_track.tsv
shephard/tests/output_test/track_random_vals.tsv
shephard/tools/__init__.py
shephard/tools/attribute_tools.py
shephard/tools/attribute_tools.py~
shephard/tools/domain_tools.py
shephard/tools/experimental.py
shephard/tools/sequence_tools.py
shephard/tools/site_tools.py
shephard/tools/track_tools.py