CLI¶

The API for command-line interface (CLI) functions in ./sushie/cli.py file.

Functions¶

sushie.cli.parameter_check(...) → Tuple[int, DataFrame, List[str], DataFrame, List[str], Callable][source]

The function to process raw phenotype, genotype, covariates data across ancestries

for individual-level data fine-mapping.

sushie.cli.process_raw(...) → Tuple[DataFrame, CleanData, CleanData | None, List[CVData] | None][source]

The function to process raw phenotype, genotype, covariates data across ancestries.

sushie.cli.sushie_wrapper(data: CleanData, cv_data, ...) → None[source]

The wrapper function to run SuShiE in regular, meta, or mega.

sushie.cli.run_finemap(args)[source]

The umbrella function to run SuShiE.