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Old 08-31-2017, 11:05 PM   #1
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Location: Australia

Join Date: Aug 2017
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Smile Understanding bcftools call output

I have used samtools/bcftools to generate diploid consensus sequences. The final output is a fastq file which only contains one sequence, along with quality information.

My question is: how can one sequence represent a diploid genome? How does encode when a site is heterozygous? I was planning on manipulating the data (concatenating, subsampling etc), but I can't do that until I understand how it's stored.

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