LICENSE
NOTICE
README.md
pyproject.toml
src/ipd_assembly/__init__.py
src/ipd_assembly/app.py
src/ipd_assembly/assemble.py
src/ipd_assembly/campaign.py
src/ipd_assembly/chip.py
src/ipd_assembly/cli.py
src/ipd_assembly/codons.py
src/ipd_assembly/config.py
src/ipd_assembly/core.py
src/ipd_assembly/desktop.py
src/ipd_assembly/engines.py
src/ipd_assembly/enzymes.py
src/ipd_assembly/fidelity.py
src/ipd_assembly/io.py
src/ipd_assembly/mcp_server.py
src/ipd_assembly/pipeline.py
src/ipd_assembly/predefined.py
src/ipd_assembly/qc.py
src/ipd_assembly/data/SOURCES.md
src/ipd_assembly/data/b3-SapI-37_16_cycling.table-overhang_matrix.csv
src/ipd_assembly/data/b4-BbsI-HF-37_16_cycling.table-overhang_matrix.csv
src/ipd_assembly/data/b4-BsaI-HFv2-37_16_cycling-PLOS_S1.table-overhang_matrix.csv
src/ipd_assembly/data/b4-BsaI-HFv2-37_16_cycling.table-overhang_matrix.csv
src/ipd_assembly/data/b4-BsmBI-v2-42_16_cycling.table-overhang_matrix.csv
src/ipd_assembly/data/b4-Esp3I-37_16_cycling.table-overhang_matrix.csv
src/ipd_assembly/data/primers/README.md
src/ipd_assembly/data/primers/level1_oozp.csv
src/ipd_assembly/data/primers/level2_oozp.csv
src/ipdassembly.egg-info/PKG-INFO
src/ipdassembly.egg-info/SOURCES.txt
src/ipdassembly.egg-info/dependency_links.txt
src/ipdassembly.egg-info/entry_points.txt
src/ipdassembly.egg-info/requires.txt
src/ipdassembly.egg-info/top_level.txt
tests/test_campaign.py
tests/test_chip.py
tests/test_desktop.py
tests/test_determinism.py
tests/test_docs.py
tests/test_golden.py
tests/test_mcp.py
tests/test_mcpb.py
tests/test_notebook.py
tests/test_portability.py
tests/test_units.py