gbk2g2 {seqinr}R Documentation

Conversion of a GenBank format file into a glimmer-like one

Description

This function reads a file in GenBank format and converts the features corresponding to CDS (Coding Sequences) into a format similar to glimmer program output.

Usage

gbk2g2(gbkfile = "ftp://pbil.univ-lyon1.fr/pub/logiciel/oriloc/ct.gbk",
g2.coord = "g2.coord")

Arguments

gbkfile The name of the GenBank file
g2.coord The name of the glimmer-like file

Details

Partial CDS (either 5' or 3') and join in features are discarded.

Value

Author(s)

J.R. lobry

References

  To have an overview of the seqinR's functionnality, please consult this vignette: Charif, D., Lobry, J.R. (2005) SeqinR: a contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis. Springer Verlag, Biological and Medical Physics/Biomedical Series, in preparation.

See Also

oriloc

Examples

 ## Not run:  gbk2g2() 

[Package seqinr version 1.0-3 Index]