R Graphical Manual

Last data update: 2014.03.03

R: Annotation info

get_gff_info

R Documentation

Annotation info

This function extracts annotation information from a GTF/GFF file.


get_gff_info(object=FALSE,gff.file,chr,position,feature=FALSE,extract.gene.names=FALSE)

`object`	object of class `GENOME`
`gff.file`	basepath of the GTF/GFF file
`chr`	the chromosome
`position`	reference positions or region id (when `object` is specified)
`feature`	feature to search for in the gff-file. returns a list of positions
`extract.gene.names`	returns the gene names of the chromosome

This function extracts annotation information from a GTF/GFF file.

# get_gff_info("Arabidopsis.gff",chr=1,200202)
# get_gff_info(GENOME.class,"Arabidopsis.gff",chr=1,position=3)