LICENSE.txt
MANIFEST.in
README.md
requirements.txt
setup.cfg
setup.py
CAMSA.egg-info/PKG-INFO
CAMSA.egg-info/SOURCES.txt
CAMSA.egg-info/dependency_links.txt
CAMSA.egg-info/requires.txt
CAMSA.egg-info/top_level.txt
camsa/__init__.py
camsa/logging.ini
camsa/run_camsa.ini
camsa/run_camsa.py
camsa/core/__init__.py
camsa/core/comparative_analysis.py
camsa/core/data_structures.py
camsa/core/io.py
camsa/core/merging.py
camsa/core/reference_analysis.py
camsa/examples/.DS_Store
camsa/examples/gage/exp1/contigs.fasta.gz
camsa/examples/gage/exp1/gam-ngs.camsa.points
camsa/examples/gage/exp1/metassembler.camsa.points
camsa/examples/gage/exp1/scaffmatch.camsa.points
camsa/examples/gage/exp1/sga.camsa.points
camsa/examples/gage/exp1/soap2.camsa.points
camsa/examples/gage/exp1/sspace.camsa.points
camsa/examples/gage/exp2/contigs.camsa.lengths
camsa/examples/gage/exp2/contigs.fasta.gz
camsa/examples/gage/exp2/gam-ngs.camsa.points
camsa/examples/gage/exp2/metassembler.camsa.points
camsa/examples/gage/exp2/scaffmatch.camsa.points
camsa/examples/gage/exp2/sga.camsa.points
camsa/examples/gage/exp2/soap2.camsa.points
camsa/examples/gage/exp2/sspace.camsa.points
camsa/examples/gage/exp3/gam-ngs.camsa.points
camsa/examples/gage/exp3/metassembler.camsa.points
camsa/examples/gage/exp3/scaffmatch.camsa.points
camsa/examples/gage/exp3/sga.camsa.points
camsa/examples/gage/exp3/soap2.camsa.points
camsa/examples/gage/exp3/sspace.camsa.points
camsa/examples/utils/.DS_Store
camsa/examples/utils/agp/data/chr_from_component_wgs.agp
camsa/examples/utils/agp/data/chr_from_scaffold_wgs.agp
camsa/examples/utils/agp/data/scaffold_from_contig_wgs.agp
camsa/examples/utils/fasta/.DS_Store
camsa/examples/utils/fasta/data/.DS_Store
camsa/examples/utils/fasta/data/B_anthracis_Mslice.fasta.gz
camsa/examples/utils/fasta/data/B_anthracis_contigs.fasta.gz
camsa/examples/utils/fasta/data/abc.fasta
camsa/examples/utils/fasta/data/blocks.camsa.seqi
camsa/examples/utils/fasta/data/blocks.fasta
camsa/examples/utils/fasta/data/dummy.fasta
camsa/examples/utils/fasta/data/points/cp2f_abc.camsa.points
camsa/examples/utils/fasta/data/points/test_case1.txt
camsa/examples/utils/fasta/data/points/test_case2.txt
camsa/examples/utils/fasta/data/points/test_case3.txt
camsa/examples/utils/fasta/data/points/test_case4.txt
camsa/html/base_template.html
camsa/html/comparative_template.html
camsa/html/footer_template.html
camsa/html/header_template.html
camsa/html/info_template.html
camsa/html/reference_template.html
camsa/html/comparative/aggregated_assembly_points_template.html
camsa/html/comparative/assemblies_overview_template.html
camsa/html/comparative/grouped_assemblies_overview_template.html
camsa/html/comparative/per_assembly_template.html
camsa/libs/css/bootstrap-theme.min.css
camsa/libs/css/bootstrap-theme.min.css.map
camsa/libs/css/bootstrap-toggle.min.css
camsa/libs/css/bootstrap.min.css
camsa/libs/css/bootstrap.min.css.map
camsa/libs/css/dataTables.bootstrap.min.css
camsa/libs/css/dataTables.bootstrap4.min.css
camsa/libs/css/dataTables.foundation.min.css
camsa/libs/css/dataTables.jqueryui.min.css
camsa/libs/css/dataTables.material.min.css
camsa/libs/css/dataTables.semanticui.min.css
camsa/libs/css/dataTables.uikit.min.css
camsa/libs/css/datatables.min.css
camsa/libs/css/font-awesome.min.css
camsa/libs/css/ion.Slider.css
camsa/libs/css/ion.rangeSlider.skinModern.css
camsa/libs/css/jquery.dataTables.min.css
camsa/libs/fonts/glyphicons-halflings-regular.eot
camsa/libs/fonts/glyphicons-halflings-regular.svg
camsa/libs/fonts/glyphicons-halflings-regular.ttf
camsa/libs/fonts/glyphicons-halflings-regular.woff
camsa/libs/fonts/glyphicons-halflings-regular.woff2
camsa/libs/images/Sorting icons.psd
camsa/libs/images/candidate_edge.png
camsa/libs/images/details_close.png
camsa/libs/images/details_open.png
camsa/libs/images/empty.png
camsa/libs/images/exact_edge.png
camsa/libs/images/favicon.ico
camsa/libs/images/giphy.gif
camsa/libs/images/gwu_header_logo.png
camsa/libs/images/map_edge.png
camsa/libs/images/parallel_edges.png
camsa/libs/images/scaffold_edge.png
camsa/libs/images/sort_asc.png
camsa/libs/images/sort_asc_disabled.png
camsa/libs/images/sort_both.png
camsa/libs/images/sort_desc.png
camsa/libs/images/sort_desc_disabled.png
camsa/libs/images/sprite-skin-modern.png
camsa/libs/js/bootstrap-toggle.min.js
camsa/libs/js/bootstrap.js
camsa/libs/js/bootstrap.min.js
camsa/libs/js/comparative.js
camsa/libs/js/cytoscape-cose-bilkent.js
camsa/libs/js/cytoscape-cxtmenu.js
camsa/libs/js/cytoscape-dagre.js
camsa/libs/js/cytoscape.min.js
camsa/libs/js/d3.min.js
camsa/libs/js/dagre.min.js
camsa/libs/js/dataTables.bootstrap.min.js
camsa/libs/js/dataTables.bootstrap4.min.js
camsa/libs/js/dataTables.foundation.min.js
camsa/libs/js/dataTables.jqueryui.min.js
camsa/libs/js/dataTables.material.min.js
camsa/libs/js/dataTables.semanticui.min.js
camsa/libs/js/dataTables.uikit.min.js
camsa/libs/js/datatables.min.js
camsa/libs/js/highcharts-export.js
camsa/libs/js/highcharts.min.js
camsa/libs/js/ion.rangeSlider.min.js
camsa/libs/js/jquery-2.2.3.min.js
camsa/libs/js/jquery.dataTables.min.js
camsa/libs/js/npm.js
camsa/libs/js/pdfobject.min.js
camsa/libs/js/venn.min.js
camsa/output/examples/gage/exp1/report.html
camsa/output/examples/gage/exp2/report.html
camsa/output/examples/gage/exp2/report.html__new.html
camsa/output/examples/gage/exp3/report.html
camsa/utils/__init__.py
camsa/utils/shared.py
camsa/utils/agouti/agouti2camsa_points.ini
camsa/utils/agouti/agouti2camsa_points.py
camsa/utils/agp/__init__.py
camsa/utils/agp/agp2camsa_points.ini
camsa/utils/agp/agp2camsa_points.py
camsa/utils/camsa/__init__.py
camsa/utils/camsa/camsaPrepareInput.py
camsa/utils/fasta/__init__.py
camsa/utils/fasta/algo.py
camsa/utils/fasta/camsa_points2fasta.ini
camsa/utils/fasta/camsa_points2fasta.py
camsa/utils/fasta/data_structures.py
camsa/utils/fasta/fasta2camsa_points.ini
camsa/utils/fasta/fasta2camsa_points.py
camsa/utils/fasta/fasta2camsa_seqi.ini
camsa/utils/fasta/fasta2camsa_seqi.py
camsa/utils/grimm/__init__.py
camsa/utils/grimm/grimm2camsa_points.ini
camsa/utils/grimm/grimm2camsa_points.py
camsa/utils/ragout/__init__.py
camsa/utils/ragout/data_structures.py
camsa/utils/ragout/io.py
camsa/utils/ragout/ragout_coords2camsa_points.ini
camsa/utils/ragout/ragout_coords2camsa_points.py
camsa/utils/ragout/ragout_coords2camsa_seqi.ini
camsa/utils/ragout/ragout_coords2camsa_seqi.py
camsa/utils/ragout/ragout_coords2fasta.py
camsa/utils/ragout/ragout_coords_coverage.py
camsa/utils/ragout/shared.py