converter wiggle_to_simple.py $input $out_file1

**Syntax** This tool converts wiggle data into interval type. - **Wiggle format**: The .wig format is line-oriented. Wiggle data is preceded by a UCSC track definition line. Following the track definition line is the track data, which can be entered in three different formats described below. - **BED format** with no declaration line and four columns of data:: chromA chromStartA chromEndA dataValueA chromB chromStartB chromEndB dataValueB - **variableStep** two column data; started by a declaration line and followed with chromosome positions and data values:: variableStep chrom=chrN [span=windowSize] chromStartA dataValueA chromStartB dataValueB - **fixedStep** single column data; started by a declaration line and followed with data values:: fixedStep chrom=chrN start=position step=stepInterval [span=windowSize] dataValue1 dataValue2 ----- **Example** - input wiggle format file:: #track type=wiggle_0 name="Bed Format" description="BED format" chr19 59302000 59302300 -1.0 chr19 59302300 59302600 -0.75 chr19 59302600 59302900 -0.50 chr19 59302900 59303200 -0.25 chr19 59303200 59303500 0.0 #track type=wiggle_0 name="variableStep" description="variableStep format" variableStep chrom=chr19 span=150 59304701 10.0 59304901 12.5 59305401 15.0 59305601 17.5 #track type=wiggle_0 name="fixedStep" description="fixed step" visibility=full fixedStep chrom=chr19 start=59307401 step=300 span=200 1000 900 800 700 600 - convert the above file to interval file:: chr19 59302000 59302300 + -1.0 chr19 59302300 59302600 + -0.75 chr19 59302600 59302900 + -0.5 chr19 59302900 59303200 + -0.25 chr19 59303200 59303500 + 0.0 chr19 59304701 59304851 + 10.0 chr19 59304901 59305051 + 12.5 chr19 59305401 59305551 + 15.0 chr19 59305601 59305751 + 17.5 chr19 59307701 59307901 + 1000.0 chr19 59308001 59308201 + 900.0 chr19 59308301 59308501 + 800.0 chr19 59308601 59308801 + 700.0 chr19 59308901 59309101 + 600.0