├── .gitignore ├── LICENSE.txt ├── README.md ├── breakseq2 ├── __init__.py ├── _version.py ├── biopy │ ├── __init__.py │ └── io │ │ ├── Fasta.py │ │ ├── GFF.py │ │ ├── SV.py │ │ └── __init__.py ├── breakseq_core.py ├── breakseq_index.py ├── breakseq_post.py ├── breakseq_pre.py ├── breakseq_top.py ├── compute_zygosity.py ├── gen_vcf.py └── preprocess_and_align.py ├── scripts ├── breakseq2_gen_bplib.py └── run_breakseq2.py └── setup.py /.gitignore: -------------------------------------------------------------------------------- 1 | *.pyc 2 | .idea 3 | build/ 4 | dist/ 5 | -------------------------------------------------------------------------------- /LICENSE.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/bioinform/breakseq2/HEAD/LICENSE.txt -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 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