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sPYce is a since cell and single nucleus ATAC-seq integration method across different species implemented in Python.

Collection of R scripts and pipelines for the PvSTATEM project.

Data visualization protocols, mostly using R

MANOCCA test is based on covariance. This project implements MANOCCA, MANOVA and provides an simulation environment and an explainer.

A nextflow pipeline to analyze GWAS Summary Statistics with JASS. The pipeline execute:

clean and harmonize data with jass_preprocessing if specified impute data with RAISS create input data for JASS analyse group of trait with jass

A python package to impute the SNP summary statistics from neighboring SNPs summary statistics by taking advantage of linkage desiquilibrium

A nextflow pipeline to analyze GWAS Summary Statistics with JASS. The pipeline execute:

clean and harmonize data with jass_preprocessing if specified impute data with RAISS create input data for JASS analyse group of trait with jass

Data and code of the article Rasoamalala et al. "Unraveling the role of rat and flea population dynamics on the seasonality of plague epidemics in Madagascar", Proceedings of the National Academy of Sciences (2025).