SuShiE🍣¶
SuShiE (Sum of Shared Single Effect) is a Python software to fine-map causal SNPs, compute prediction weights, and infer effect size correlation for molecular data (e.g., mRNA levels and protein levels etc.) across multiple ancestries.
We detest usage of our software or scientific outcome to promote racial discrimination.
SuShiE is described in
Improved multi-ancestry fine-mapping identifies cis-regulatory variants underlying molecular traits and disease risk medRxiv
Zeyun Lu, Xinran Wang, Matthew Carr, Artem Kim, Steven Gazal, Pejman Mohammadi, Lang Wu, Alexander Gusev, James Pirruccello, Linda Kachuri, Nicholas Mancuso
Contents¶
User Guide
Development
Other Software¶
Feel free to use other software developed by Mancuso Lab:
- 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.