Difference between revisions of "LibStatGen: FASTQ"

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(Created page with '== How to Use the fastQValidator Executable == '''Required Parameters:''' -f : FastQ filename with path to be prorcessed. '''Optional Parameters:''' -l : Min…')
 
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         ./fastQValidator -f test/testFile.txt -l 10 -b BC -e 100
 
         ./fastQValidator -f test/testFile.txt -l 10 -b BC -e 100
 
         time ./fastQValidator -f test/testFile.txt -t ReadOnly
 
         time ./fastQValidator -f test/testFile.txt -t ReadOnly
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== FastQ Validator Output ==
 +
The FastQ Validator

Revision as of 11:48, 3 February 2010

How to Use the fastQValidator Executable

Required Parameters:

       -f  :  FastQ filename with path to be prorcessed.

Optional Parameters:

       -l  :  Minimum allowed read length (Defaults to 10).
       -e  :  Maximum number of errors to display before suppressing them(Defaults to 20).
       -b  :  Raw sequence type:  B - ACTGN only (Default)
                                  C - 0123. only
                                 BC - ACTGN or 0123.

Testing only Parameters:

       -t  :  If "ReadOnly" is specified, the fastq will be read but not processed.  This may be used for determining read time.

Usage:

       ./fastQValidator -f <fileName> -l <minReadLen> -e <maxReprotedErrors> -b <rawSeqType>

Examples:

       ../fastQValidator -f testFile.txt
       ../fastQValidator -f testFile.txt -l 10 -b BC -e 100
       ./fastQValidator -f test/testFile.txt -l 10 -b BC -e 100
       time ./fastQValidator -f test/testFile.txt -t ReadOnly

FastQ Validator Output

The FastQ Validator