SAFE-h2 Software for Additive and Non-Additive SNP Heritability Estimation

SAFE-h2 is a 1.4 GB software tool for estimating SNP heritability from genome-wide association studies. Developed by Behrooz Darbani, it creates heritability profiles to minimize contributions from false-positive SNPs and can perform joint analysis on additive and non-additive allelic effects.

Use Cases

• Estimate SNP heritability using additive-only allelic effects from GWAS summary statistics.
• Perform joint heritability analysis incorporating both additive and non-additive allelic effects.
• Create heritability profiles to filter SNPs with illogical negative contributions.
• Minimize the heritability contributions attributed to false-positive SNP hits identified in GWAS.

Strengths

• Software package is 1.4 GB, containing compiled scripts and a usage manual.
• Method is designed to address specific analytical challenges like false-positive SNP hits and negative contributions.
• Released under a permissive CC BY 4.0 license for academic and commercial reuse.
• Associated with a detailed research article (doi: 10.1101/2023.08.28.555092) explaining the methodology.

Limitations

• Dataset is software code and documentation, not a tabular dataset with rows and columns for direct analysis.
• Input requires pre-existing GWAS summary statistics; the tool does not contain its own genetic data.
• The description provides no information on sample size, number of features, or test data for validation.

Provenance

Source

figshare, from academic research by Behrooz Darbani.

Collection Method

Developed as a computational tool for genetic analysis.

Time Range

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Freshness

Last updated March 2026.

Geography

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