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config.yml
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###############################################################################
#
# Config options for the snakemake workflow
#
# AUTHOR: Maciej_Bak
# CONTACT: [email protected]
# CREATED: 15-02-2022
# LICENSE: Apache_2.0
#
###############################################################################
---
### WORKFLOW PARAMETERS ###
# Path to the cloned repository
# (absolute path is required, also: do not use "~" character -
# some HPC clusters evaluate it differently on login & computing nodes)
workflow_repo_path: ""
# Path for the output directory
# (absolute path is required, also: do not use "~" character -
# some HPC clusters evaluate it differently on login & computing nodes)
workflow_analysis_outdir: ""
### DEMON PARAMETERS ###
# spatial_structure
demon_log2_deme_carrying_capacity:
# dispersal
demon_migration_type:
demon_init_migration_rate:
demon_migration_edge_only:
demon_migration_rate_scales_with_K:
# mutation_rates
demon_mu_driver_birth:
demon_mu_passenger:
demon_mu_driver_migration:
demon_passenger_pop_threshold:
# fitness_effects
demon_normal_birth_rate:
demon_baseline_death_rate:
demon_s_driver_birth:
demon_s_passenger:
demon_s_driver_migration:
demon_max_relative_birth_rate:
demon_max_relative_migration_rate:
# non_biological_parameters
demon_init_pop:
demon_matrix_max:
demon_max_pop:
demon_max_time:
demon_max_generations:
demon_seed:
demon_write_grid:
demon_write_clones_file:
demon_write_demes_file:
demon_record_matrix:
demon_write_phylo:
demon_calculate_total_diversity:
demon_biopsy_size_per_sample:
...