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m6-All-admixture.yml
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description: Demographic Modeling of Admixed Latin American Populations from Whole Genomes. Latin American populations admixture.
time_units: years
generation_time: 29
demes:
- name: ancestral
description: Equilibrium/root population
epochs:
- {end_time: 483457.24308765423, start_size: 13580.373657849503}
- name: AMH
description: Anatomically modern humans
ancestors: [ancestral]
epochs:
- {end_time: 88347.64825867464, start_size: 27142.07281765073}
- name: OOA
description: Bottleneck out-of-Africa population
ancestors: [AMH]
epochs:
- {end_time: 51166.128542006336, start_size: 1834.8116479610317}
- name: YRI
description: Yoruba in Ibadan, Nigeria. Representative of African ancestries.
ancestors: [AMH]
epochs:
- {end_time: 0, start_size: 27142.07281765073}
- name: IBS
description: Iberian populations in Spain (IBS). Representative of European ancestries.
ancestors: [OOA]
epochs:
- {end_time: 0, start_size: 2761.3347067250797, end_size: 26462.05884107293}
- name: CHB
description: Han Chinese in Beijing, China. Representative of East Asian ancestries.
ancestors: [OOA]
epochs:
- {end_time: 0, start_size: 1954.52946761033, end_size: 15363.53634144032}
- name: MXB
description: Indigenous American in Mexico. Representative of Indigenous American ancestries.
start_time: 32555.12765744615
ancestors: [CHB]
epochs:
- {end_time: 0, start_size: 1312.8044812722449, end_size: 38461.62164227266}
# Admixed populations
# MXL
- name: MXL
description: Mexicans in Los Angeles. Representative of the Mexican population.
ancestors: [MXB, IBS]
proportions: [0.7545, 0.2455]
start_time: 466
epochs:
- {end_time: 0, start_size: 20000}
# CLM
- name: CLM
description: Colombians in Medellin. Representative of the Colombian population.
ancestors: [IBS, MXB]
proportions: [0.4387, 0.5613]
start_time: 390
epochs:
- {end_time: 0, start_size: 20000}
# PEL
- name: PEL
description: Peruvians in Lima. Representative of the Peruvian population.
ancestors: [IBS, MXB]
proportions: [0.909, 0.091]
start_time: 412
epochs:
- {end_time: 0, start_size: 20000}
# PUR
- name: PUR
description: Puerto Ricans in Puerto Rico. Representative of the Puerto Rican population.
ancestors: [IBS, MXB, YRI]
proportions: [0.8484, 0.141, 0.0106]
start_time: 407
epochs:
- {end_time: 0, start_size: 20000}
migrations:
- demes: [YRI, IBS]
rate: 2.501606466512543e-05
- demes: [YRI, CHB]
rate: 3.2948319408915263e-06
- demes: [IBS, CHB]
rate: 6.62400743683469e-05
- demes: [YRI, OOA]
rate: 0.00015859499514691533
# MXL
- {source: MXB, dest: MXL, rate: 0.0503, end_time: 58}
- {source: IBS, dest: MXL, rate: 0.0576, end_time: 58}
# CLM
- {source: IBS, dest: CLM, rate: 0.0618, end_time: 58}
- {source: MXB, dest: CLM, rate: 0.0084, end_time: 58}
# PEL
- {source: MXB, dest: PEL, rate: 0.1246, end_time: 58}
- {source: IBS, dest: PEL, rate: 0.0103, end_time: 58}
# PUR
- {source: YRI, dest: PUR, rate: 0.0105, end_time: 58}
pulses:
# MXL
- sources: [YRI, CHB]
dest: MXL
proportions: [0.1175, 0.0067]
time: 380
# CLM
- sources: [YRI]
dest: CLM
proportions: [0.1194]
time: 275
# PEL
- sources: [YRI]
dest: PEL
proportions: [0.0542]
time: 225
- sources: [CHB]
dest: PEL
proportions: [0.0105]
time: 141