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PacificBiosciences / FALCON_unzip

Making diploid assembly becomes common practice for genomic study
BSD 3-Clause Clear License
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Avoid long ref_seq string in parameters for falcon_unzip.phasing.make_het_call #59

Closed pb-cdunn closed 7 years ago

pb-cdunn commented 7 years ago

task.json:

{
    "inputs": {
        "bam_file": "/localdisk/home/fab/yeast_example/3-unzip/0-phasing/000000F/blasr/000000F_sorted.bam"
    },
    "outputs": {
        "q_id_map_file": "q_id_map",
        "vmap_file": "variant_map",
        "vpos_file": "variant_pos"
    },
    "parameters": {
        "base_dir": "..",
        "ctg_id": "000000F",
        "ref_seq": "TTGCAGAACCTCGCTGTTGTGTGATCAAAATCCGTCAAAATGGCCATTAATTCTTCCTTTGAAACTTTTTTATACTGCCGATAAACTAAACAGCACACGCGAACAAAAATGAAGATACATGTGATCTCCATTA
    },
    "python_function": "falcon_unzip.phasing.make_het_call"
}

in human assembly, the sequence can be > 50Mb