python-scripts/staphscope
site-packages/staphscope-1.2.1.dist-info/INSTALLER
site-packages/staphscope-1.2.1.dist-info/METADATA
site-packages/staphscope-1.2.1.dist-info/RECORD
site-packages/staphscope-1.2.1.dist-info/REQUESTED
site-packages/staphscope-1.2.1.dist-info/WHEEL
site-packages/staphscope-1.2.1.dist-info/direct_url.json
site-packages/staphscope-1.2.1.dist-info/entry_points.txt
site-packages/staphscope-1.2.1.dist-info/licenses/LICENSE
site-packages/staphscope-1.2.1.dist-info/top_level.txt
site-packages/staphscope/__init__.py
site-packages/staphscope/core/banner.py
site-packages/staphscope/core/staphscope.py
site-packages/staphscope/modules/abricate_module/__init__.py
site-packages/staphscope/modules/abricate_module/abricate_standalone.py
site-packages/staphscope/modules/amr_module/__init__.py
site-packages/staphscope/modules/amr_module/amrfinder_standalone.py
site-packages/staphscope/modules/amr_module/bin/amr_report
site-packages/staphscope/modules/amr_module/bin/amrfinder
site-packages/staphscope/modules/amr_module/bin/amrfinder_index
site-packages/staphscope/modules/amr_module/bin/amrfinder_update
site-packages/staphscope/modules/amr_module/bin/disruption2genesymbol
site-packages/staphscope/modules/amr_module/bin/dna_mutation
site-packages/staphscope/modules/amr_module/bin/fasta2parts
site-packages/staphscope/modules/amr_module/bin/fasta_check
site-packages/staphscope/modules/amr_module/bin/fasta_extract
site-packages/staphscope/modules/amr_module/bin/gff_check
site-packages/staphscope/modules/amr_module/bin/mutate
site-packages/staphscope/modules/amr_module/bin/stx/fasta_check
site-packages/staphscope/modules/amr_module/bin/stx/fasta_extract
site-packages/staphscope/modules/amr_module/bin/stx/stx.prot
site-packages/staphscope/modules/amr_module/bin/stx/stxtyper
site-packages/staphscope/modules/amr_module/bin/stx/test/amrfinder_integration.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/amrfinder_integration.fa
site-packages/staphscope/modules/amr_module/bin/stx/test/amrfinder_integration2.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/amrfinder_integration2.fa
site-packages/staphscope/modules/amr_module/bin/stx/test/basic.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/basic.fa
site-packages/staphscope/modules/amr_module/bin/stx/test/basic.nuc_out.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/cases.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/cases.fa
site-packages/staphscope/modules/amr_module/bin/stx/test/synthetics.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/synthetics.fa
site-packages/staphscope/modules/amr_module/bin/stx/test/virulence_ecoli.expected
site-packages/staphscope/modules/amr_module/bin/stx/test/virulence_ecoli.fa
site-packages/staphscope/modules/amr_module/bin/stx/test_stxtyper.sh
site-packages/staphscope/modules/amr_module/bin/stx/version.txt
site-packages/staphscope/modules/amr_module/bin/stxtyper
site-packages/staphscope/modules/amr_module/bin/test_amrfinder.sh
site-packages/staphscope/modules/amr_module/bin/test_both.expected
site-packages/staphscope/modules/amr_module/bin/test_disrupt.expected
site-packages/staphscope/modules/amr_module/bin/test_disrupt.fa
site-packages/staphscope/modules/amr_module/bin/test_dna.expected
site-packages/staphscope/modules/amr_module/bin/test_dna.fa
site-packages/staphscope/modules/amr_module/bin/test_dna_mut_all.expected
site-packages/staphscope/modules/amr_module/bin/test_prot.expected
site-packages/staphscope/modules/amr_module/bin/test_prot.fa
site-packages/staphscope/modules/amr_module/bin/test_prot.gff
site-packages/staphscope/modules/amr_module/bin/version.txt
site-packages/staphscope/modules/amr_module/stx/fasta_check
site-packages/staphscope/modules/amr_module/stx/fasta_extract
site-packages/staphscope/modules/amr_module/stx/stx.prot
site-packages/staphscope/modules/amr_module/stx/stxtyper
site-packages/staphscope/modules/amr_module/stx/test/amrfinder_integration.expected
site-packages/staphscope/modules/amr_module/stx/test/amrfinder_integration.fa
site-packages/staphscope/modules/amr_module/stx/test/amrfinder_integration2.expected
site-packages/staphscope/modules/amr_module/stx/test/amrfinder_integration2.fa
site-packages/staphscope/modules/amr_module/stx/test/basic.expected
site-packages/staphscope/modules/amr_module/stx/test/basic.fa
site-packages/staphscope/modules/amr_module/stx/test/basic.nuc_out.expected
site-packages/staphscope/modules/amr_module/stx/test/cases.expected
site-packages/staphscope/modules/amr_module/stx/test/cases.fa
site-packages/staphscope/modules/amr_module/stx/test/synthetics.expected
site-packages/staphscope/modules/amr_module/stx/test/synthetics.fa
site-packages/staphscope/modules/amr_module/stx/test/virulence_ecoli.expected
site-packages/staphscope/modules/amr_module/stx/test/virulence_ecoli.fa
site-packages/staphscope/modules/amr_module/stx/test_stxtyper.sh
site-packages/staphscope/modules/amr_module/stx/version.txt
site-packages/staphscope/modules/fasta_qc_module/staph_fasta_qc.py
site-packages/staphscope/modules/lineage_module/html_reference.py
site-packages/staphscope/modules/lineage_module/lineage_database.py
site-packages/staphscope/modules/lineage_module/staphscope_lineage_reference.html
site-packages/staphscope/modules/mlst_module/bin/mlst
site-packages/staphscope/modules/mlst_module/db/VERSION.txt
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.ndb
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nhd
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nhi
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nhr
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nin
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.njs
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nog
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nos
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.not
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nsq
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.ntf
site-packages/staphscope/modules/mlst_module/db/blast/mlst.fa.nto
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/arcC.tfa
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/aroE.tfa
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/database_version.txt
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/glpF.tfa
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/gmk.tfa
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/pta.tfa
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/saureus.txt
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/tpi.tfa
site-packages/staphscope/modules/mlst_module/db/pubmlst/saureus/yqiL.tfa
site-packages/staphscope/modules/mlst_module/db/scheme_species_map.tab
site-packages/staphscope/modules/mlst_module/mlst_database.sh
site-packages/staphscope/modules/mlst_module/mlst_module.py
site-packages/staphscope/modules/mlst_module/perl5/MLST/Logger.pm
site-packages/staphscope/modules/mlst_module/perl5/MLST/PubMLST.pm
site-packages/staphscope/modules/mlst_module/perl5/MLST/Requirements.pm
site-packages/staphscope/modules/mlst_module/perl5/MLST/Scheme.pm
site-packages/staphscope/modules/mlst_module/perl5/Path/Tiny.pm
site-packages/staphscope/modules/mlst_module/scripts/mlst-make_blast_db
site-packages/staphscope/modules/mlst_module/scripts/mlst-show_seqs
site-packages/staphscope/modules/sccmec_module/SCCmecFinder_v4.py
site-packages/staphscope/modules/sccmec_module/__init__.py
site-packages/staphscope/modules/sccmec_module/generate_staphscope_summary.sh
site-packages/staphscope/modules/sccmec_module/run_sccmec_batch.sh
site-packages/staphscope/modules/sccmec_module/sccmec_database.sh
site-packages/staphscope/modules/sccmec_module/script_dir/CGE_MyDbFinder-1.1.py
site-packages/staphscope/modules/sccmec_module/script_dir/__init__.py
site-packages/staphscope/modules/sccmec_module/script_dir/findtemplate.py
site-packages/staphscope/modules/sccmec_module/script_dir/maketemplatedb.py
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/__init__.py
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/main/spaTyper
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/main/sparepeats.fasta
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/main/spatypes.txt
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/spaTyper/__init__.py
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/spaTyper/enricher.py
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/spaTyper/spa_typing.py
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/spaTyper/utils.py
site-packages/staphscope/modules/spa_module/spatyper/spa_typing/spa_typing_module.py
site-packages/staphscope/modules/summary_module/comprehensive_report.py
site-packages/staphscope/modules/summary_module/staphscope_ultimate_reporter.py
site-packages/staphscope/modules/visualization_module/staphscope_visualizer.py
site-packages/staphscope/staphscope.py
site-packages/tests/__init__.py
site-packages/tests/test_staphscope.py
