bcftools parameter to define mitochondrial heteroplasmy and haploid condition.
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3.2 years ago

Hi, I am trying to analyse my mitochondrial data set. As mitochondria are heteroplasmic and haploid, while using bcftools how can I specify both? Earlier I used the command to call the variants to my bcf file created my using bcftools mpileup

bcftools call --ploidy 1 -m -v -o my_input_raw.bcf

I tried to look around and found other software but I did not come across any specific parameter with bcftools.

Thank you in advance.

SNP RNA-Seq sequencing snp assembly • 947 views
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I highly appreciate any suggestion at this point.

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