make_eupath_granges: Generate a GRanges rda savefile from a gff file.

In khughitt/EuPathDB: Provides access to pathogen annotation resources available on EuPathDB databases

Generate a GRanges rda savefile from a gff file.

Description

There is not too much else to say. This uses import.gff from rtracklayer. I should probably steal my code from hpgltools to make this work for any version of a gff file, but the eupathdb is good about keeping consistent on this front.

Usage

make_eupath_granges(entry, eu_version = NULL, copy_s3 = FALSE)

Arguments

entry	Metadatum entry.
eu_version	Optionally request a specific version of the gff file.
copy_s3	Copy the 2bit file into an s3 staging directory for copying to AnnotationHub?
build_dir	Place to put the resulting file(s).

khughitt/EuPathDB documentation built on Nov. 4, 2023, 4:19 a.m.