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Old 09-01-2017, 12:05 AM   #1
evoevo
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Location: Australia

Join Date: Aug 2017
Posts: 1
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.

Cheers!
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