sim_completeness: This function computes the completeness of a haplotype
In mccoy-lab/rhapsodi: R haploid sperm/oocyte data imputation
View source: R/sim_completeness.R
sim_completeness R Documentation
This function computes the completeness of a haplotype
Description
This function computes the completeness of a haplotype by finding the number of NAs
and then dividing the number of NAs by the total number of genotypes or SNPs in the haplotype
Finally, we subtract this ratio from 1 to find the ratio of complete or non-NA genotypes
in the hapltoype. Note that this function works for a single vector/haplotype or for a matrix with
multiple haplotypes. In the first case, we return a single value.
In the latter case, we return a vector of values.
Usage
sim_completeness(predicted, num_snps)
Arguments
predicted
the rhapsodi predicted haplotype vector or haplotypes matrix/data frame where genotypes are 0/1 encoded
num_snps
an integer, the number of SNPs or the length of the haplotype
Value
to_return the completeness of the input. If predicted is a vector, to_return is a numeric. else if predicted is 2-dimensional, to_return is a vector of numerics
mccoy-lab/rhapsodi documentation built on July 27, 2022, 3:56 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
View source: R/sim_completeness.R
| sim_completeness | R Documentation |
This function computes the completeness of a haplotype
Description
This function computes the completeness of a haplotype by finding the number of NAs and then dividing the number of NAs by the total number of genotypes or SNPs in the haplotype Finally, we subtract this ratio from 1 to find the ratio of complete or non-NA genotypes in the hapltoype. Note that this function works for a single vector/haplotype or for a matrix with multiple haplotypes. In the first case, we return a single value. In the latter case, we return a vector of values.
Usage
sim_completeness(predicted, num_snps)
Arguments
predicted |
the rhapsodi predicted haplotype vector or haplotypes matrix/data frame where genotypes are 0/1 encoded |
num_snps |
an integer, the number of SNPs or the length of the haplotype |
Value
to_return the completeness of the input. If predicted is a vector, to_return is a numeric. else if predicted is 2-dimensional, to_return is a vector of numerics
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.