plotASEMetrics: Plot ASE metrics generated by Gen.input.

In AClement1990/hap-eQTL: What the Package Does (One Line, Title Case)

Description

This function takes the output of Gen.input and produces various plots regarding allele specific expression in the dataset.

Usage

plotASEMetrics(input, individuals = NULL, genes = NULL, variants = NULL)

Arguments

input	The output of the Gen.input function
individuals	The individual(s) to restrict the plots to.
genes	The gene(s) to restrict the plots to.
variants	The variant(s) to restrict the plots to.

Examples

#' #Plot the output of Gen.input stored in aseDat
plotASEMetrics(aseDat)
                    
#Annotating the input files using a previous human gene set
Gen.input("path_to_ASE_file/ASEfile.txt.gz",
                    "path_to_legend_file/file.legendfile.gz",
                   "path_to_haplotypes_file/hapfile.hap.gz",
                    "path_to_samples_file/samples.txt", ensembl_version=78)

#Annotating the input files using the most recent mouse gene set
Gen.input("path_to_ASE_file/ASEfile.txt.gz",
                    "path_to_legend_file/file.legendfile.gz",
                  "path_to_haplotypes_file/hapfile.hap.gz",
                    "path_to_samples_file/samples.txt",
                    "mmusculus")

AClement1990/hap-eQTL documentation built on Jan. 8, 2021, 12:41 a.m.