SuShiE🍣¶
SuShiE (Sum of Shared Single Effect) is a Python package for multiancestry SNP fine-mapping, estimating effect size correlations across ancestries, and computing ancestry-specific prediction weights using either individual-level or summary-level data for molecular or complex traits.
We detest usage of our software or scientific outcome to promote racial discrimination.
SuShiE is described in
Improved multiancestry fine-mapping identifies cis-regulatory variants underlying molecular traits and disease risk Nature Genetics. July, 2025.
Zeyun Lu, Xinran Wang, Matthew Carr, Artem Kim, Steven Gazal, Pejman Mohammadi, Lang Wu, James Pirruccello, Linda Kachuri, Alexander Gusev, Nicholas Mancuso
Contents¶
User Guide
Development
Other Software¶
Feel free to use other software developed by Mancuso Lab:
jaxQTL<https://github.com/mancusolab/jaxqtl>: jaxQTL is a single-cell eQTL mapping tool using highly efficient count-based model (i.e., negative binomial or Poisson).MA-FOCUS: a Bayesian fine-mapping framework using statistics across multiple ancestries to identify the causal genes for complex traits.
SuSiE-PCA: a scalable Bayesian variable selection technique for sparse principal component analysis
twas_sim: a Python software to simulate statistics.
FactorGo: a scalable variational factor analysis model that learns pleiotropic factors from GWAS summary statistics.
HAMSTA: a Python software to estimate heritability explained by local ancestry data from admixture mapping summary statistics.
Traceax: a Python library to perform stochastic trace estimation for linear operators.