LICENSE
MANIFEST.in
README.md
pyproject.toml
settings.ini
setup.py
ssi_analysis_result_parsers/Legionella_parser.py
ssi_analysis_result_parsers/Spyogenes_parser.py
ssi_analysis_result_parsers/__init__.py
ssi_analysis_result_parsers/_modidx.py
ssi_analysis_result_parsers/blast_parser.py
ssi_analysis_result_parsers/core.py
ssi_analysis_result_parsers/hello_world.py
ssi_analysis_result_parsers/some_string.py
ssi_analysis_result_parsers.egg-info/PKG-INFO
ssi_analysis_result_parsers.egg-info/SOURCES.txt
ssi_analysis_result_parsers.egg-info/dependency_links.txt
ssi_analysis_result_parsers.egg-info/entry_points.txt
ssi_analysis_result_parsers.egg-info/not-zip-safe
ssi_analysis_result_parsers.egg-info/requires.txt
ssi_analysis_result_parsers.egg-info/top_level.txt
ssi_analysis_result_parsers/config/config.default.env
ssi_analysis_result_parsers/config/config.default.yaml
test_input/.DS_Store
test_input/empty_file.txt
test_input/Legionella/batch_parser_file_paths.tsv
test_input/Legionella/lag-1_blast.tsv
test_input/Legionella/lag-1_blast_2.tsv
test_input/Legionella/test.sbt.tsv
test_input/Legionella/test2.sbt.tsv
test_input/Spyogenes/batch_parser_file_paths.tsv
test_input/Spyogenes/emm_typing/Mga.fasta
test_input/Spyogenes/emm_typing/emm_clusters.txt
test_input/Spyogenes/emm_typing/test1.emm.blast.tsv
test_input/Spyogenes/emm_typing/test1.mga.blast.tsv
test_input/Spyogenes/emm_typing/test2.emm.blast.tsv
test_input/Spyogenes/emm_typing/test2.mga.blast.tsv
test_input/Spyogenes/emm_typing/test3.emm.blast.tsv
test_input/Spyogenes/emm_typing/test4.emm.blast.tsv
test_input/Spyogenes/emm_typing/test5.emm.blast.tsv
test_input/Spyogenes/emm_typing/test6.emm.blast.tsv
test_input/blast_parser/allele_matches_test.tsv
test_input/blast_parser/empty_gene_presence_absense_test.tsv
test_input/blast_parser/gene_presence_absence_test.tsv
test_output/output_with_sample_name.tsv
test_output/test.tsv
test_output/test_batch_output.tsv