Imputef: imputation of polyploid genotype classes and allele frequencies.

ABSTRACT:

Background

There is a lack of genotype imputation software tailored specifically for polyploids and pooled samples without phased haplotype information and reference panel of genotypes. Numerous important crops are polyploids, while pool sequencing is an emerging cost-effective approach for the genomic characterisation of breeding populations, families, and other segregating lines. The scarcity of imputation tools for these datasets results in the reliance on diploid-specific software, potentially leading to suboptimal outcomes. This necessitates the development of allele frequency imputation tools which accommodate the unique computational challenges presented by polyploid genomes and pooled sequencing data.

Results

We developed imputef, an allele frequency imputation tool

SUBMITTER: Paril J 

PROVIDER: S-EPMC12542404 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature