Problem phasing Indels

Hi I tried to phase my Indel vcf file using BEAGLE and I got an error, I then read in these forum that BEAGLE can't be used for Indels. My question is: Is there another program to do this?

indels beagle phasing

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written 8.7 years ago by hdtms •

Phasing tools via omicsoft.

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written 8.7 years ago by GenoMax

If I understood correctly OP already has identified the indels, but now wants to phase those. Beagle indeed only handles well behaving biallelic substitutions.

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written 8.7 years ago by WouterDeCoster

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