loadSimulation: Load some previously saved simulation data by function...
In adimitromanolakis/sim1000G: Genotype Simulations for Rare or Common Variants Using Haplotypes from 1000 Genomes
Description
Usage
Arguments
Examples
Description
Load some previously saved simulation data by function saveSimulation
Usage
1
loadSimulation(id)
Arguments
id
Name the simulation to load which was previously saved by saveSimulation
Examples
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examples_dir = system.file("examples", package = "sim1000G")
vcf_file = file.path(examples_dir, "region.vcf.gz")
vcf = readVCF( vcf_file, maxNumberOfVariants = 100 ,
min_maf = 0.12 ,max_maf = NA)
# For a realistic genetic map
# use the function readGeneticMap
generateUniformGeneticMap()
startSimulation(vcf, totalNumberOfIndividuals = 200)
ped1 = newNuclearFamily(1)
saveSimulation("sim1")
vcf = readVCF( vcf_file, maxNumberOfVariants = 100 ,
min_maf = 0.02 ,max_maf = 0.5)
startSimulation(vcf, totalNumberOfIndividuals = 200)
saveSimulation("sim2")
loadSimulation("sim1")
adimitromanolakis/sim1000G documentation built on Sept. 29, 2021, 3:44 a.m.
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Description Usage Arguments Examples
Description
Load some previously saved simulation data by function saveSimulation
Usage
1 | loadSimulation(id)
|
Arguments
id |
Name the simulation to load which was previously saved by saveSimulation |
Examples
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 | examples_dir = system.file("examples", package = "sim1000G")
vcf_file = file.path(examples_dir, "region.vcf.gz")
vcf = readVCF( vcf_file, maxNumberOfVariants = 100 ,
min_maf = 0.12 ,max_maf = NA)
# For a realistic genetic map
# use the function readGeneticMap
generateUniformGeneticMap()
startSimulation(vcf, totalNumberOfIndividuals = 200)
ped1 = newNuclearFamily(1)
saveSimulation("sim1")
vcf = readVCF( vcf_file, maxNumberOfVariants = 100 ,
min_maf = 0.02 ,max_maf = 0.5)
startSimulation(vcf, totalNumberOfIndividuals = 200)
saveSimulation("sim2")
loadSimulation("sim1")
|
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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