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mecfs_bio.analysis.decode_me_fine_mapping

Script to run fine mapping analysis on DecodeME data.

Functions:

run_fine_mapping_decode_me_analysis 

run_fine_mapping_decode_me_analysis()

Function to fine map the main DecodeME loci using SUSIE. As an LD reference, use a UK biobank LD reference matrix from the Broad institute.

Source code in mecfs_bio/analysis/decode_me_fine_mapping.py 
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def run_fine_mapping_decode_me_analysis():
    """
    Function to fine map the main DecodeME loci using SUSIE.
    As an LD reference, use a UK biobank LD reference matrix from the Broad institute.
    """
    DEFAULT_RUNNER.run(
        (
            DECODE_ME_GWAS_37_CHR1_174_128_548_FINEMAP_PALINDROMES.terminal_tasks()
            + DECODE_ME_GWAS_37_CHR6_26_215_000_FINEMAP_PALINDROMES.terminal_tasks()
            + DECODE_ME_GWAS_37_CHR6_97_505_620_FINEMAP_PALINDROMES.terminal_tasks()
            + DECODE_ME_GWAS_37_CHR_15_54_925_638_FINEMAP_PALINDROMES.terminal_tasks()
            + DECODE_ME_GWAS_37_CHR17_50_237_377_FINEMAP_PALINDROMES.terminal_tasks()
            + DECODE_ME_GWAS_37_CHR20_47_653_000_FINEMAP_PALNDROMES.terminal_tasks()
        ),
        incremental_save=True,
        must_rebuild_transitive=[],
    )