Hi I am new to this forum and bioinformatics, I am trying to understand the functionality of the VariantAnnotation package in Bioconductor R, in the filterVcf vignette the files are read in from the package as follows
code chunk number 5: createFilteredFile
file.gz <- system.file("extdata", "chr7-sub.vcf.gz",
file.gz.tbi <- system.file("extdata", "chr7-sub.vcf.gz.tbi",
can someone please explain, how do I read in my own vcf and tbi file?
Following is the link to the R code