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Thunder

251 bytes added, 12:32, 15 October 2010
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== Input Data ==
To get started, you will need bam glf files in the standard format [http://samtools.sourceforge.net/SAM1.pdf glf format]. If you do not have glf files, you can generate them from bam files (bam format also specified in [http://samtools.sourceforge.net/SAM1.pdf glf format bam format]) using the following command line:  samtools pileup -g -T 1 -f ref.fa my.bam > my.glf
== How to Run ==
== Important Filters ==
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