read.glimmer: Read a Glimmer output file

Description Usage Arguments Details Value Author(s) References See Also Examples

View source: R/read.glimmer.R

Description

Read a Glimmer3 gene output file from NCBI

Usage

1

Arguments

file

Glimmer3 file

Details

Glimmer files are available from the NCBI genomes ftp directory, ftp://ftp.ncbi.nih.gov/genomes.

Value

GRanges with 3 elementMetadata columns: id, frame and score

Author(s)

Chris Stubben

References

Details about Glimmer3 are available at http://www.cbcb.umd.edu/software/glimmer

See Also

read.ncbi.ftp

Examples

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 file<-"ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Yersinia_pestis_CO92_uid57621/NC_003132.Glimmer3" 
 x <-read.glimmer(file)
 x
 metadata(x)
 table(values(x)$frame)

cstubben/genomes2 documentation built on May 12, 2017, 1:19 p.m.