import_gff_gtf {GALLO} | R Documentation |
Import .gtf and .gff files to be used during gene and QTL annotation, respectively
Description
Takes a .gft or .gff file and import into a dataframe
Usage
import_gff_gtf(db_file, file_type)
Arguments
db_file |
File with the gene mapping or QTL information. For gene mapping, a .gtf file from Ensembl database must be used. For the QTL search, a .gff file from Animal QTlLdb must be used. Both files must use the same reference annotation used in the original study |
file_type |
"gtf" or "gff" |
Value
A dataframe with the gtf or gtf content
Examples
gffpath <- system.file("extdata", "example.gff", package="GALLO")
qtl.inp <- import_gff_gtf(db_file=gffpath,file_type="gff")
[Package GALLO version 1.5 Index]