From b839164bd9601b3870f1c5f0dbb6cd3a4707c46d Mon Sep 17 00:00:00 2001 From: Kirill Tsukanov Date: Tue, 25 Jun 2024 14:27:04 +0100 Subject: [PATCH] chore: remove the locus_radius parameter (#659) Code inspection shows that it is not used anymore. --- src/gentropy/susie_finemapper.py | 2 -- 1 file changed, 2 deletions(-) diff --git a/src/gentropy/susie_finemapper.py b/src/gentropy/susie_finemapper.py index 3da67f240..16c2ef1cc 100644 --- a/src/gentropy/susie_finemapper.py +++ b/src/gentropy/susie_finemapper.py @@ -47,7 +47,6 @@ def __init__( study_locus_collected_path: str, study_index_path: str, output_path: str, - locus_radius: int = 500_000, max_causal_snps: int = 10, primary_signal_pval_threshold: float = 1, secondary_signal_pval_threshold: float = 1, @@ -71,7 +70,6 @@ def __init__( study_locus_collected_path (str): path to the collected study locus study_index_path (str): path to the study index output_path (str): path to the output - locus_radius (int): Radius of base-pair window around the locus, default is 500_000 max_causal_snps (int): Maximum number of causal variants in locus, default is 10 primary_signal_pval_threshold (float): p-value threshold for the lead variant from the primary signal (credibleSetIndex==1), default is 5e-8 secondary_signal_pval_threshold (float): p-value threshold for the lead variant from the secondary signals, default is 1e-7