├── .gitignore ├── .gitlab-ci.yml ├── .gitmodules ├── .travis.yml ├── CHANGELOG.md ├── LICENSE.md ├── MANIFEST.in ├── Makefile ├── README.md ├── docs ├── conf.py ├── index.rst └── programs.rst ├── images └── ONT_logo_590x106.png ├── pomoxis ├── __init__.py ├── assess_homopolymers.py ├── bio.py ├── catalogue_errors.py ├── common_errors_from_bam.py ├── coverage_from_bam.py ├── filter_bam.py ├── find_indels.py ├── qscores_from_summary.py ├── ref_seqs_from_bam.py ├── stats_from_bam.py ├── subsample_bam.py ├── summary_from_stats.py ├── trim_alignments.py └── util.py ├── prog_docs.py ├── requirements.txt ├── scripts ├── assess_assembly ├── intersect_assembly_errors ├── mini_align └── mini_assemble └── setup.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/nanoporetech/pomoxis/HEAD/.gitignore -------------------------------------------------------------------------------- /.gitlab-ci.yml: 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