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Fig. 1 | Genome Biology

Fig. 1

From: nPhase: an accurate and contiguous phasing method for polyploids

Fig. 1

nPhase pipeline and verification process. a The nPhase pipeline requires three inputs: a long-read dataset, a short-read dataset, and a reference genome sequence. Both sequencing datasets are mapped to this reference genome; then, the short reads are variant called in order to identify heterozygous positions. The long reads are reduced to only their heterozygous positions, and this set of linked heterozygous positions is phased by the nPhase algorithm and outputs phased haplotypes. b In parallel with running the virtual polyploids through the nPhase pipeline, we map the original strains to the same reference and variant call them to identify their haplotypes. This generates the true-positive dataset against which we will compare the haplotypes predicted by nPhase in order to assess the accuracy of our algorithm

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