prepare_database: Prepare an Unprocessed Database for Gene Name Conversion

In chenyenchung/genofeatutil: Utilities for genomic feature manipulation

Description

prepare_database() loads gene name / ID conversion tables from online databases (e.g., FlyBase) and a user-provided GTF file that is used to annotate the features of the NGS dataset of interest (e.g., the GTF file STAR or cellranger count uses) into memory for later processing by make_database().

Usage

prepare_database(species = "dmel", gtf.path, version = NULL)

Arguments

species	a character string describing the species of the genes. (Options: "dmel")
gtf.path	a character string containing the path to the GTF file containing the input gene names (e.g., the GTF files used by cellranger count)
version	a character specifying the version desired (e.g., "FB2019_01".)

Value

a list containing data frames and character strings of meta data

chenyenchung/genofeatutil documentation built on May 15, 2019, 10:38 p.m.