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Michael T. Wolfinger > Bio-ViennaNGS > bed2bedGraph.pl

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Bio-ViennaNGS-v0.17.1.tar.gz

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NAME ^

bed2bedGraph.pl - Convert BED or extended BED files to bedGraph format

SYNOPSIS ^

bed2bedGraph.pl [-f FILE] [-c FILE] [-t STRING] [-a STRING] [options]

DESCRIPTION ^

This program converts BED files to strand specific bedGraph files, allowing additional annotation and automatic generation of bedGraph files which can easily be converted to big-type files for UCSC visualization.

OPTIONS ^

-f

BED file for conversion.

-c

File containing chromosome sizes

-t

Type of bed file (e.g. sample name, replicate name, condition, ...)

-a

Whether file is a standard bed or extended bed, 'extended' for extended bed

--help -h

Print short help

--man

Prints the manual page and exits

AUTHOR ^

Joerg Fallmann <joerg.fallmann@univie.ac.at>

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