AUTHORS.rst
CONTRIBUTING.rst
HISTORY.rst
LICENSE.rst
MANIFEST.in
README.rst
setup.cfg
setup.py
docs/Makefile
docs/authors.rst
docs/conf.py
docs/contributing.rst
docs/history.rst
docs/index.rst
docs/install.rst
docs/license.rst
docs/make.bat
docs/readme.rst
docs/usage.rst
docs/usage/frankenfasta.rst
docs/usage/matrix.rst
docs/usage/vcf_to_matrix.rst
nasp/__init__.py
nasp/configuration_parser.py
nasp/convert_external_genome.py
nasp/dispatcher.py
nasp/find_duplicates.py
nasp/format_fasta.py
nasp/illumina_adapters_all.fasta
nasp/matrix_DTO.py
nasp/nasp.py
nasp/nasp_objects.py
nasp/nasptool_linux_32
nasp/nasptool_linux_64
nasp/vcf_to_matrix.py
nasp.egg-info/PKG-INFO
nasp.egg-info/SOURCES.txt
nasp.egg-info/dependency_links.txt
nasp.egg-info/entry_points.txt
nasp.egg-info/not-zip-safe
nasp.egg-info/top_level.txt
scripts/filter_matrix_by_coord.py
scripts/filter_matrix_by_distance.py
scripts/filter_matrix_by_genome.py
scripts/matrix_to_fasta.py
scripts/merge_matrices.py
scripts/report_single_snps_single_isolate.py
tests/__init__.py
tests/nasp/__init__.py
tests/nasp/configuration_parser_test.py
tests/nasp/convert_external_genome_test.py
tests/nasp/dispatcher_test.py
tests/nasp/find_duplicates_test.py
tests/nasp/format_fasta_test.py
tests/nasp/nasp_objects/__init__.py
tests/nasp/nasp_objects/genome_collection_test.py
tests/nasp/nasp_objects/genome_meta_test.py
tests/nasp/nasp_objects/genome_status_test.py
tests/nasp/nasp_objects/genome_test.py
tests/testdata/__init__.py
tests/testdata/duplicates.txt
tests/testdata/example.fasta
tests/testdata/gatk.vcf
tests/testdata/general_stats.tsv
tests/testdata/reference.delta
tests/testdata/reference.fasta
tests/vtm/__init__.py
tests/vtm/analyze_test.py
tests/vtm/matrix_dto_test.py
tests/vtm/parse_test.py
tests/vtm/vtm_test.py
tests/vtm/write_matrix_test.py