├── .circleci └── config.yml ├── .gitignore ├── DEVELOP.md ├── Dockerfile ├── LICENSE ├── README.md ├── doc ├── example_output │ ├── example.all.json │ ├── example.all.txt │ ├── example.contribs.json │ ├── example.contribs.txt │ ├── example.plot.json │ ├── example.trace.json │ ├── example.windowed.json │ └── example.windowed.txt └── ice_logo.png ├── ice ├── __init__.py ├── __version__.py ├── analysis.py ├── classes │ ├── __init__.py │ ├── edit_proposal.py │ ├── edit_proposal_creator.py │ ├── guide_target.py │ ├── ice_result.py │ ├── pair_alignment.py │ ├── proposal_base.py │ ├── sanger_analysis.py │ └── sanger_object.py ├── outputs │ ├── __init__.py │ ├── create_discordance_indel_files.py │ ├── create_json.py │ └── create_trace_files.py ├── tests │ ├── __init__.py │ ├── fixtures.py │ ├── test_alignment.py │ ├── test_analysis.py │ ├── test_batch.py │ ├── test_data │ │ ├── alignment_fail_control.ab1 │ │ ├── alignment_fail_edited.ab1 │ │ ├── bad_batch_definition.xlsx │ │ ├── bad_guide_sequence_control.ab1 │ │ ├── bad_guide_sequence_edited.ab1 │ │ ├── batch_example.xlsx │ │ ├── donor_example_control.ab1 │ │ ├── donor_example_knockin.ab1 │ │ ├── donor_sub_example_control.ab1 │ │ ├── donor_sub_example_edited.ab1 │ │ ├── good_example_control.ab1 │ │ ├── good_example_edited.ab1 │ │ ├── low_quality_control.ab1 │ │ ├── low_quality_control2.ab1 │ │ ├── low_quality_edited.ab1 │ │ ├── low_quality_edited2.ab1 │ │ ├── multiplex0_control.ab1 │ │ ├── multiplex0_edited.ab1 │ │ ├── multiplex1_control.ab1 │ │ └── multiplex1_edited.ab1 │ ├── test_edit_proposal_creator.py │ ├── test_sanger_object.py │ ├── test_sequence.py │ └── test_utility.py └── utility │ ├── __init__.py │ ├── misc.py │ └── sequence.py ├── ice_analysis_batch.py ├── ice_analysis_single.py ├── python_example.py ├── requirements.txt ├── setup.cfg └── setup.py /.circleci/config.yml: -------------------------------------------------------------------------------- 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