LICENSE
MANIFEST.in
README.md
pyproject.toml
assets/aci.png
assets/amplicon_depth.png
assets/amplicon_depth_for_sample.png
assets/amplicon_max_depth_boxplot.png
assets/amplicon_min_depth_boxplot.png
assets/heatmap_efficiency.png
assets/heatmap_max_depth.png
assets/heatmap_min_depth.png
assets/logo.png
assets/min_depth.png
assets/overall_depth.png
src/aci/__init__.py
src/aci/__main__.py
src/aci/cli.py
src/aci/logic/bed_parser.py
src/aci/logic/counter.py
src/aci/logic/genome_depth.py
src/aci/logic/get_coverage.py
src/aci/logic/group_create.py
src/aci/logic/group_mean.py
src/aci/logic/report.py
src/aci/logic/split_dataframe.py
src/aci/plotting/heatmap.py
src/aci/plotting/plotting_amplicons.py
src/aci/plotting/plotting_boxplot.py
src/aci/plotting/plotting_depth.py
src/aci/utils/__init__.py
src/aci/utils/io.py
src/aci/utils/parse_args.py
src/amplicon_coverage_inspector.egg-info/PKG-INFO
src/amplicon_coverage_inspector.egg-info/SOURCES.txt
src/amplicon_coverage_inspector.egg-info/dependency_links.txt
src/amplicon_coverage_inspector.egg-info/entry_points.txt
src/amplicon_coverage_inspector.egg-info/requires.txt
src/amplicon_coverage_inspector.egg-info/top_level.txt
tests/MN908947.3_depth.png
tests/amplicon_depth.png
tests/amplicon_depth_test.bam.png
tests/amplicon_efficiency_matrix.csv
tests/amplicon_max_depth.csv
tests/amplicon_max_depth_boxplot.png
tests/amplicon_min_depth.csv
tests/amplicon_min_depth.png
tests/amplicon_min_depth_boxplot.png
tests/amplicon_read_assignments.csv
tests/depth_comparison_test.bam.png
tests/dropout_report.tsv
tests/heatmap_efficiency.png
tests/heatmap_max_depth.png
tests/heatmap_min_depth.png
tests/sample_uniformity_report.tsv
tests/test_aci.py
tests/test_genome_depth.py
tests/test_get_coverage.py
tests/test_integration.py
tests/test_io.py
tests/test_logic.py
tests/test_parse_args.py
tests/test_plotting_amplicons.py
tests/test_plotting_boxplot.py
tests/test_plotting_depth.py
tests/test_report.py
tests/data/test.bam
tests/data/test.bed
tests/data/test.bed~
tests/data/test.interval.csv
tests/masking_files/test.bam_mask.bed