Changes

Here is a summary of the TrioCaller command line options (these are also listed whenever you run the program with no parameters):

Here is a summary of the TrioCaller command line options (these are also listed whenever you run the program with no parameters):

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Available Options

Available Options

   Shotgun Sequences: --shotgun [], --pedfile []  

   Shotgun Sequences: --shotgun [], --pedfile []  

Explanation of Options

Explanation of Options

             --shotgun:   Standard VCF file (4.0 and above).         

             --shotgun:   Standard VCF file[http://www.1000genomes.org/node/101] (4.0 and above).         

             --pedfile:    Pedigree file in MERLIN format.

             --pedfile:    Pedigree file in MERLIN format.

                 --seed:    Seed for sampling, default 123456.

                 --seed:    Seed for sampling, default 123456.

               --prefix:    The prefix of output file   

               --prefix:    The prefix of output file   

     --interimInterval:    The number of rounds for interim outputs

     --interimInterval:    The number of rounds for interim outputs

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To complete our example analysis, we could run:

To complete our example analysis, we could run: