├── .gitignore ├── .travis.yml ├── LICENSE.md ├── MANIFEST.in ├── Makefile ├── README.md ├── docs ├── conf.py ├── configuration.rst ├── examples.rst ├── faq.rst ├── index.rst ├── installation.rst ├── medaka_train.rst ├── medaka_train_variant.rst └── tests.rst ├── images └── ONT_logo_590x106.png ├── katuali ├── __init__.py └── data │ ├── Snakefile │ ├── alignment.snake │ ├── assembly.snake │ ├── basecalling.snake │ ├── cluster_config.yaml │ ├── config.yaml │ ├── config_variant.yaml │ ├── correction.snake │ ├── evaluation.snake │ ├── medaka_train.snake │ ├── medaka_train_variant.snake │ └── test │ ├── reads.tgz │ └── ref.fasta ├── requirements.txt ├── scripts └── katuali └── setup.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/nanoporetech/katuali/HEAD/.gitignore -------------------------------------------------------------------------------- /.travis.yml: 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