getORF: Wrapper function for EMBOSS 'getorf' program
In ababaian/RRNAframework: R interface for RNAframework

Wrapper function for EMBOSS 'getorf' program

1	getORF(ntFa, orfFa)

`ntFa`	A transcriptome reference file
`orfFa`	An ORF output file generated by getorf. Default: "getorf reference.fa refORF.fa -find 1 -noreverse"

orf.df object. A data.frame describing the ORFs found

1
2
3

# Run getorf
system('getorf fa/reference.fa fa/refORF.fa -find 1 -noreverse')
orf.df = getORF(ntFa = 'reference.fa', orfFa = 'reference_orf.fa')

ababaian/RRNAframework documentation built on March 18, 2020, 1:29 a.m.

ababaian/RRNAframework index

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

Description