gbLocus-class: Generator object for the '"gbLocus"' reference class

In gschofl/biofiles: An Interface for GenBank/GenPept Flat Files

Description

Generator object for the "gbLocus" reference class

Generates an object representing a GenBank LOCUS line.

Arguments

...	List of arguments (see NOTE)

Methods

#new(lnm, len, mtp, div, top, mdt, cdt):

Create a new gbLocus object

#to_string():

Create a string representation of a GenBank LOCUS field.

Fields

lnm:

Locus name. Usually the accession number.

len:

Sequence length; In bp or aa, depending on mtp.

mtp:

Molecule type; NA, DNA, RNA, tRNA (transfer RNA), rRNA (ribosomal RNA), mRNA (messenger RNA), uRNA (small nuclear RNA), or AA (protein sequence). RNAs can be prefixes ss- (single-stranded), ds- (double-stranded), or ms- (mixed-stranded)

div:

Genbank division.

top:

Topology; linear, circular, or missing (NA).

mdt:

Modification date.

cdt:

Create date.

Extends

All reference classes extend and inherit methods from "envRefClass".

Note

Arguments to the #new method must be named arguments:

• lnm Locus name; stored in the lnm field.

• len Sequence lenght; stored in the len field.

• mtp Molecule type; stored in the mtp field).

• div Genbank division; stored in the div field.

• top Topology; stored in the top field.

• mdt Modification date; stored in the mdt field.

• cdt Create date; stored in the cdt field.

Examples

showClass("gbLocus")

gschofl/biofiles documentation built on Sept. 27, 2020, 12:08 a.m.