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harrispopgen / mutyper

Ancestral k-mer mutation types for SNP data
https://harrispopgen.github.io/mutyper/
MIT License
7 stars 3 forks source link

ancestral genome estimation #4

Closed wsdewitt closed 4 years ago

wsdewitt commented 4 years ago

add an alternative constructor for Ancestor that generates an ancestral genome estimate using a reference FASTA, an aligned outgroup FASTA, and a SNP database

wsdewitt commented 4 years ago

An aligned outgroup FASTA isn't always easy to find, but one can be created using the available pairwise alignment .ax files, e.g. for mouse-rat. See .ax file format.