Processed SNP Data and Phylogenomic Trees for the Quercus engleriana Oak Complex

Processed genomic files support phylogenomic analyses of the Quercus engleriana oak complex. The 128.4 MB dataset includes filtered SNP data in VCF format, PHYLIP alignment matrices, and a rooted maximum-likelihood phylogenomic tree. Author Luting Liu deposited the data on figshare in 2026 to accompany a manuscript on species delimitation.

Use Cases

• Reproducing phylogenomic analyses based on the filtered SNP dataset and tree files.
• Conducting comparative phylogenomic studies based on the provided PHYLIP alignment matrices.
• Testing species delimitation methods using the SNP data and associated tree for the Quercus engleriana complex.

Strengths

• Data is processed and analysis-ready, including filtered SNPs, alignment matrices, and a rooted tree.
• Files are provided in standard bioinformatics formats (VCF, PHY, TRE) totaling 128.4 MB.
• Analysis methodology is specified, including IQ-TREE v.2.0.5 and the TVM+F+R5 substitution model.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Raw sequencing reads are not included, limiting re-analysis from the original data.

Provenance

Source

Luting Liu

Collection Method

Generated from genomic sequencing data, filtered and analyzed for phylogenomics.

Freshness

Last updated 2026-05-17 07:49:50