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 / 
CLIPSeqTools-0.1.0
River stage zero No dependents
/ CLIPSeqTools::CompareApp::compare_counts

NAME

CLIPSeqTools::CompareApp::compare_counts - Compare tables with counts.

SYNOPSIS

clipseqtools compare_counts [options/parameters]

DESCRIPTION

Do Upper Quartile normalization on specified value column of one or more tables. For each table, all entries are sorted by descending value (specified by val_col). All values are divided by the value of the 25%th entry. The 25%th entry is specified by the table with the fewer entries after the entries with value lower than val_thres in all tables are excluded.

OPTIONS

  Input options.
    --table <Str>          input table file/files. Use option multiple
                           times to specify multiple table files.
    --key_col <Str>        name for the column/columns to use as a key. It
                           must be unique for each table row. Use option
                           multiple times to specify multiple columns.
    --val_col <Str>        name of column with values to be normalized.

  Output.
    --o_table <Str>        output table file/files. Use option multiple
                           times to give multiple files. Must be given as
                           many times as the table option.

  Other options.
    --val_thres <Num>      rows with value lower or equal than val_thres
                           are not used for normalization. Default: 0
    -v --verbose           print progress lines and extra information.
    -h -? --usage --help   print help message