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== Index File ==
 
== Index File ==
Each line of the index file represents each individual under the following format. Note that multiple BAMs per individual may be provided.
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Each line of the index file represents each individual under the following format. Note that multiple BAMs per individual may be provided. Note that if all samples are from the same population, just specify "ALL" for the population label for each sample.
 
  [SAMPLE_ID]    [COMMA SEPARATED POPULATION LABELS] [BAM_FILE1] [BAM_FILE2] ...
 
  [SAMPLE_ID]    [COMMA SEPARATED POPULATION LABELS] [BAM_FILE1] [BAM_FILE2] ...
  
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