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ca2ace: converter from Celera Assembler message format to .ACE |
Overview
Ca2ace can be used to convert assembler output in the Celera Assembler message format to the .ACE format (readable by consed).
System requirements
Ca2ace is written in Perl. It requires Perl 5.6.0 or newer and was tested on several Unix systems including Linux RedHat 7.3, OSF5.1, Sun Solaris, and Linux SuSE 9.1 and should run on most systems UNIX systems.
Obtaining ca2ace
Ca2ace can be downloaded as a part of the AMOS package.
This software is OSI Certified
Open Source Software.
Documentation
Synopsis
ca2ace [options]-i <infile>.asm [-o <outfile>]
Ca2ace reads a Celera Assembler message file (<infile>.asm) specified on the command line and produces a .ACE file. It automatically detects the presence of the <infile>.frg file containing the input provided to the assembler. The output file name is generated from the first file on the command line unless specifically set through option -o (see below).
Options
-o <outfile>
- place output in <outfile>
-c
<chromat_dir> - the chromatograms can be found in
directory <chromat_dir>
-p <phd_dir>
- the PHD files can be found in directory <phd_dir>
Note: the chromat_dir and phd_dir parameters are only used to provide consed with the necessary information used to display chromatograms. These options are only relevant if the assembler inputs were generated using the phred pipeline.
Contact Information
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