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Find the minimum number of responsive genes in a list of DataFrames.

This function takes a list of DataFrames and finds the minimum number of responsive genes in any of the DataFrames. This is used to normalize the rank response across expression data sets.

Parameters:

Name Type Description Default
args Namespace

The parsed command line arguments.

 required

Returns:

Type Description
None

None. prints the minimum number of responsive genes in any of the
None

DataFrames to stdout.
Source code in callingcardstools/Analysis/yeast/rank_response/find_min_responsive_main.py 
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def main(args: argparse.Namespace) -> None:
    """
    Find the minimum number of responsive genes in a list of DataFrames.

    This function takes a list of DataFrames and finds the minimum number of
    responsive genes in any of the DataFrames. This is used to normalize the
    rank response across expression data sets.

    Args:
        args (argparse.Namespace): The parsed command line arguments.

    Returns:
        None. prints the minimum number of responsive genes in any of the
        DataFrames to stdout.
    """
    none_pattern = r'(?i)^none$'

    try:
        effect_col_list = \
            [None if bool(re.match(none_pattern, x)) else str(x)
             for x in args.effect_col_list]
    except ValueError as exc:
        logger.error("Error in `find_min_responsive_main()`: %s", exc)
        raise

    try:
        effect_thres_list = \
            [None if bool(re.match(none_pattern, x)) else float(x)
             for x in args.effect_thres_list]
    except ValueError as exc:
        logger.error("Error in `find_min_responsive_main()`: %s", exc)
        raise

    try:
        pval_col_list = \
            [None if bool(re.match(none_pattern, x)) else str(x)
             for x in args.pval_col_list]
    except ValueError as exc:
        logger.error("Error in `find_min_responsive_main()`: %s", exc)
        raise

    try:
        pval_thres_list = \
            [None if bool(re.match(none_pattern, x)) else float(x)
             for x in args.pval_thres_list]
    except ValueError as exc:
        logger.error("Error in `find_min_responsive_main()`: %s", exc)
        raise

    try:
        min_responsive = find_min_responsive(args.data_path_list,
                                             args.identifier_col_list,
                                             effect_col_list,
                                             effect_thres_list,
                                             pval_col_list,
                                             pval_thres_list)

        print(min_responsive)
    except (KeyError, TypeError, FileNotFoundError) as exc:
        logger.error("Error in `find_min_responsive_main()`: %s", exc)
        raise