Here we report a human variants interpreter, named SC-VAR.
This tool can interpret disease-related risks with whole genome wide (including both coding and non-coding regions) variants from GWAS studies and single-cell data on three layers: risk genes, gene sets, and cell types.
pip install sc-var
check https://pypi.org/project/sc-var/
Check Usage.ipynb for details We provide Vignettes for the three analytical branches
Data request:
Single cell data & Peak co-accessibility Data or Peak to gene linkage Data (which could obtained from single cell data using cicero or signac) & GWAS data