Science Advances

This PDF file includes:

• Fig. S1. Example topologies processed by MAPS to identify a gene duplication (red star) or not (black dot) in a given gene family phylogeny.
• Fig. S2. Example MAPS summary results for a four-taxon phylogeny.
• Fig. S3. Histograms of the age distribution of gene duplications from 24 gymnosperm transcriptomes.
• Fig. S4. Numerical summary of MAPS results.
• Table S1. Assembly statistics and accession numbers for 25 transcriptomes and 2 genomes.
• Table S2. Number of gene subtrees that fit the expected species tree support shared duplication in seed plant analysis.
• Table S3. Number of gene subtrees that fit the expected species tree support shared duplication in Pinaceae analysis.
• Table S4. Number of gene subtrees that fit the expected species tree support shared duplication in cupressophyte analysis.
• Table S5. Number of gene subtrees that fit the expected species tree support shared duplication in cupressophyte analysis using only trees with >50% bootstrap support for each branch.

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