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tqs(1) [debian man page]

TQS(1)							      General Commands Manual							    TQS(1)

NAME

       tqs - Trim Quality Solexa-Illumina Sequences

SYNOPSIS

       Quality trim solexa-Illumina sequence reads using user-defined thresholds.

OPTIONS

       -h, --help
		 show this help message and exit

       -f SEQFILE, --sequence file=SEQFILE
		 Illumina sequence file - Output format from the 1G Genome Analyzer (_seq.txt):
		     7	     1	     255     669
		     AACCCCCACTCCTACAACGCCATCATTCCCCTCGAC

       -q QUALFILE, --qual file=QUALFILE
		 A prb file containing all the Illumina intensities, as outputted by the 1G Genome Analyzer (_prb.txt)

       -l MER, --length=MER
		 Length of sequence reads (i.e. Number of sequencing cycles, default=36)

       -t THRESHOLD, --threshold=THRESHOLD
		 Base intensity threshold value (-40 to 40, default=5)

       -d DIFF, --difference=DIFF
		 Base intensity difference between top intensity and second best (1 to 80, default=5)

       -c CONSEC, --consec=CONSEC
		 Minimum number of consecutive bases passing threshold values (default=20)

       -v, --verbose
		 Runs in Verbose mode.

SEE ALSO

       /usr/share/doc/ssake/TQS.readme

AUTHORS

       This  manual page was written by Andreas Tille <tille@debian.org> for the Debian system (but may be used by others).  Permission is granted
       to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by
       the Free Software Foundation.

       On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.

								   January 2008 							    TQS(1)

Check Out this Related Man Page

GAPHORCONVERT(1)					      General Commands Manual						  GAPHORCONVERT(1)

NAME

       gaphorconvert - Gaphor UML diagram conversion tool

SYNOPSIS

       gaphorconvert [ options ] file1 file2...

DESCRIPTION

       This manual describes gaphorconvert command.

OPTIONS

       -h, --help
	   Show help message and exit.

       -v, --verbose
	   Verbose output.

       -u, --use-underscores
	   Use underscores instead of spaces for output filenames.

       -d directory, --dir=directory
	   Output to directory.

       -f format, --format=format
	   Output file format, default is pdf.

       -r regex, --regex=regex
	   Process diagrams with name matching regex regular experssion.  Diagram name includes package name, regular expressions are case
	   insensitive.

AUTHOR

       This manual page was written by Dmitry Borodaenko for the Debian system (but may be used by others). Permission is granted to copy,
       distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by the Free
       Software Foundation.

       On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.

COPYRIGHT

       Copyright (C) 2008 Arjan Molenaar, (C) 2012 Dmitry Borodaenko

																  GAPHORCONVERT(1)
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