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Update README.md
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Devashish13 authored Feb 17, 2024
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Expand Up @@ -24,7 +24,7 @@ pip install smcpp-pipeline
from smcpp_pipeline.smcpp_pipeline import vcf2smc,estimate,plot

1) Function to convert vcf file to smc format
def vcf2smc(popfile,chromosome_info,gaps_bed,num_workers):
def vcf2smc(popfile,chromosome_info,gaps_bed=None,num_workers=None):
2) Function to estimate the demographic history of a single population
def estimate(popfile,mu = 1.25e-8,spline = "piecewise",start_time = 100, end_time=100000,knots = 8):
3) Function to generate plots from the model.json file obtained using estimate function
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