Commit 7335bb0b authored by Hanna  JULIENNE's avatar Hanna JULIENNE
Browse files

Update __main__.py

parent 730b5011
......@@ -39,7 +39,7 @@ def add_chromosome_imputation_argument():
parser.add_argument('--R2-threshold', help= "R square (imputation quality) threshold bellow which SNPs are filtered from the output", default = 0.6)
parser.add_argument("--ld-type", help= "Ld can be supplied as plink command --ld-snp-list output files (see raiss.ld_matrix.launch_plink_ld to compute these data using plink) or as a couple of a scipy sparse matrix (.npz )and an .csv containing SNPs index", default="plink")
parser.add_argument('--ref-panel-suffix', help= "end of the suffix for the reference panel files", default = ".bim")
parser.add_argument('--minimum-ld', help = "this parameter ensure that their is enough typed SNPs around the imputed to perform a high accuracy imputation", default = "20")
parser.add_argument('--minimum-ld', help = "this parameter ensure that their is enough typed SNPs around the imputed to perform a high accuracy imputation", default = 20)
parser.set_defaults(func=launch_chromosome_imputation)
return(parser)
......
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