convert_to_genename: Convert Gene Names or FlyBase Gene Numbers to Gene Names...

In chenyenchung/genofeatutil: Utilities for genomic feature manipulation

Description

convert_to_genename() takes a character vector of gene names and FlyBase gene numbers and uses the database list make_database() generated to convert them to gene names that are consistent with the version of the provided GTF file.

Usage

convert_to_genename(x, db, normalize = TRUE, remove.dup = TRUE)

Arguments

x	a character vector containing genes and FlyBase gene numbers
db	a list from make_database()
normalize	a logical expression. If set as TRUE, it will call normalize_genename() to make consistent the converted gene names.
remove.dup	a logical value to decide whether to remove duplication in the input vector. The default is TRUE.

Examples

# Make databases from dummy data
dummypath <- system.file("extdata", "dummy.gtf",
package = "genofeatutil")
testdb <- make_database(species = "test",
gtf.path = dummypath)

convert_to_genename("FBgn0000001", testdb)

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