CMakeLists.txt
LICENSE
MANIFEST.in
README.md
__init__.py
helen.py
helen_train.py
marginPolish.py
marginpolish.py
requirements.txt
setup.py
version.py
helen.egg-info/PKG-INFO
helen.egg-info/SOURCES.txt
helen.egg-info/dependency_links.txt
helen.egg-info/entry_points.txt
helen.egg-info/not-zip-safe
helen.egg-info/requires.txt
helen.egg-info/top_level.txt
img/Figure4a.png
img/Figure4b.png
img/Figure4c.png
img/Figure4d.png
img/RL_confusion_guppy231.png
img/RL_confusion_guppy235.png
img/accuracy_plot.png
img/model_schema.svg
img/pipeline.svg
modules/marginpolish.cmake
modules/pybind11.cmake
modules/headers/pybind_api.h
modules/headers/local_reassembly/ssw.h
modules/headers/local_reassembly/ssw_cpp.h
modules/python/CallConsensusInterface.py
modules/python/DataStore.py
modules/python/DownloadModel.py
modules/python/FileManager.py
modules/python/Options.py
modules/python/PairwiseAlignment.py
modules/python/PolishInterface.py
modules/python/Stitch.py
modules/python/StitchInterface.py
modules/python/TestInterface.py
modules/python/TextColor.py
modules/python/TrainInterface.py
modules/python/__init__.py
modules/python/hyperbandInterface.py
modules/python/helper/VCF_remove_phase.py
modules/python/helper/assess_summary_analyzer.py
modules/python/helper/csv_analyzer.py
modules/python/helper/hdf5_reader.py
modules/python/helper/quast_sv_extractor.py
modules/python/helper/tensor_analyzer.py
modules/python/helper/test_pairwisealigner.py
modules/python/models/ModelHander.py
modules/python/models/TransducerModel.py
modules/python/models/__init__.py
modules/python/models/dataloader.py
modules/python/models/dataloader_debug.py
modules/python/models/dataloader_predict.py
modules/python/models/hyperband.py
modules/python/models/predict.py
modules/python/models/predict_cpu.py
modules/python/models/predict_gpu.py
modules/python/models/test.py
modules/python/models/test_debug.py
modules/python/models/train.py
modules/python/models/train_distributed.py
modules/src/pybind_api.cpp
modules/src/local_reassembly/ssw.c
modules/src/local_reassembly/ssw_cpp.cpp