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Added the new LogCustom distribution into the virus distributions

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Luis Aleixo 2022-05-31 15:21:09 +02:00
parent 431fa3b33d
commit 4f37b2db8d
1 changed files with 5 additions and 5 deletions
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10
cara/monte_carlo/data.py
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@ -126,31 +126,31 @@ infectious_dose_distribution = Uniform(10., 100.)
# From https://doi.org/10.1101/2021.10.14.21264988 and refererences therein # From https://doi.org/10.1101/2021.10.14.21264988 and refererences therein
virus_distributions = { virus_distributions = {
'SARS_CoV_2': mc.SARSCoV2( 'SARS_CoV_2': mc.SARSCoV2(
viral_load_in_sputum=symptomatic_vl_frequencies, viral_load_in_sputum=covid_overal_vl_data,
infectious_dose=infectious_dose_distribution, infectious_dose=infectious_dose_distribution,
viable_to_RNA_ratio=viable_to_RNA_ratio_distribution, viable_to_RNA_ratio=viable_to_RNA_ratio_distribution,
transmissibility_factor=1., transmissibility_factor=1.,
), ),
'SARS_CoV_2_ALPHA': mc.SARSCoV2( 'SARS_CoV_2_ALPHA': mc.SARSCoV2(
viral_load_in_sputum=symptomatic_vl_frequencies, viral_load_in_sputum=covid_overal_vl_data,
infectious_dose=infectious_dose_distribution, infectious_dose=infectious_dose_distribution,
viable_to_RNA_ratio=viable_to_RNA_ratio_distribution, viable_to_RNA_ratio=viable_to_RNA_ratio_distribution,
transmissibility_factor=0.78, transmissibility_factor=0.78,
), ),
'SARS_CoV_2_BETA': mc.SARSCoV2( 'SARS_CoV_2_BETA': mc.SARSCoV2(
viral_load_in_sputum=symptomatic_vl_frequencies, viral_load_in_sputum=covid_overal_vl_data,
infectious_dose=infectious_dose_distribution, infectious_dose=infectious_dose_distribution,
viable_to_RNA_ratio=viable_to_RNA_ratio_distribution, viable_to_RNA_ratio=viable_to_RNA_ratio_distribution,
transmissibility_factor=0.8, transmissibility_factor=0.8,
), ),
'SARS_CoV_2_GAMMA': mc.SARSCoV2( 'SARS_CoV_2_GAMMA': mc.SARSCoV2(
viral_load_in_sputum=symptomatic_vl_frequencies, viral_load_in_sputum=covid_overal_vl_data,
infectious_dose=infectious_dose_distribution, infectious_dose=infectious_dose_distribution,
viable_to_RNA_ratio=viable_to_RNA_ratio_distribution, viable_to_RNA_ratio=viable_to_RNA_ratio_distribution,
transmissibility_factor=0.72, transmissibility_factor=0.72,
), ),
'SARS_CoV_2_DELTA': mc.SARSCoV2( 'SARS_CoV_2_DELTA': mc.SARSCoV2(
viral_load_in_sputum=symptomatic_vl_frequencies, viral_load_in_sputum=covid_overal_vl_data,
infectious_dose=infectious_dose_distribution, infectious_dose=infectious_dose_distribution,
viable_to_RNA_ratio=viable_to_RNA_ratio_distribution, viable_to_RNA_ratio=viable_to_RNA_ratio_distribution,
transmissibility_factor=0.51, transmissibility_factor=0.51,