inst/extdata/README.md

In rivas-lab/snpnet: snpnet: Efficient Lasso Solver for Large SNP Data

sample data

Here, we have example genotype and phenotype data that we use in our vignette.

For genotype, we have the following 3 files:

• sample.pgen: this is a binary file storing the genotype matrix in a compressed format.
• sample.psam: this is a text file containing the list of individuals
• sample.pvar.zst: this is a zstd (Zstandard)-compressed text file containing the list of genetic variants.

For phenotype (response variable, Y, in the regression model), we have sample.phe, which is a table stored in a text file.

Lastly, we have vars.rds as a R language's .rds format that stores a list object. One can read it with readRDS function in R.

Please check our vignette for more information.

rivas-lab/snpnet documentation built on Dec. 14, 2021, 3:22 a.m.