NAME

parseNewblerMetrics.pl

SYNOPSIS

  parseNewblerMetrics.pl [options] <454NewblerMetrics.txt>
  Options:
  -sff <file>  Name of output sff file (optional; if omitted, -lib must be specified.)
  -lib <file>  Name of output library file (optional; if omitted, -sff must be specified.)
  -h help message (optional)

DESCRIPTION

This script parses the 454NewblerMetrics.txt file generated by the Newbler assembler to produce a file containing sff locations and/or a file containing the library insert size and std deviation.

The format of the sff file is as follows, where each item is separated by a tab:

  1. sff name
  2. sff file location
  3. type (P-paired, U-unpaired)

The format of the library file is as follows, where each item is separated by a tab:

  1. library name
  2. insert size
  3. standard deviation

VERSION

$Revision: 1.6 $

$Date: 2009-08-26 17:18:15 $

AUTHOR(S)

Stephan Trong

HISTORY