genotypes_pca: Custom PCA function for analyzing genotype SNP data.
In jinhyunju/icreport: Tools for creating a visual summary of matrix decomposition results.
Description
Usage
Arguments
Value
Description
Performing PCA on a dataset and create a list object with results.
Usage
1
2
genotypes_pca(genotype.mx = NULL, info.df = NULL, check.covars = NULL,
cor.threshold = 0.05)
Arguments
genotype.mx
Genotype matrix with diemnsions g x N
info.df
Dataframe that holds sample covariates (ex. population, gender, age, etc...)
check.covars
Column names of info.df which hold the covariates
that should be used for association testing with IC coefficients.
cor.threshold
Threshold for significant correlation calling. Default is set to 0.05.
Value
List with the following entries.
jinhyunju/icreport documentation built on May 19, 2019, 10:35 a.m.
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Description Usage Arguments Value
Description
Performing PCA on a dataset and create a list object with results.
Usage
1 2 | genotypes_pca(genotype.mx = NULL, info.df = NULL, check.covars = NULL,
cor.threshold = 0.05)
|
Arguments
genotype.mx |
Genotype matrix with diemnsions g x N |
info.df |
Dataframe that holds sample covariates (ex. population, gender, age, etc...) |
check.covars |
Column names of info.df which hold the covariates that should be used for association testing with IC coefficients. |
cor.threshold |
Threshold for significant correlation calling. Default is set to 0.05. |
Value
List with the following entries.
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.
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