seqinr: readsmj – R documentation

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readsmj

Low level function to read ACNUC SMJYT index files

Description

Extract informations from the SMJYT index file for status, molecule, journal, year, type, organelle, division, and db structure information.

Usage

readsmj(socket = autosocket(), num = 2, nl = 10, recnum.add = FALSE, nature.add = TRUE,
plong.add = FALSE, libel.add = FALSE, sname.add = FALSE, all.add = FALSE)

Arguments

`socket`	an object of class `sockconn` connecting to a remote ACNUC database (default is a socket to the last opened database).
`num`	rank number of first record.
`nl`	number of records to read.
`recnum.add`	to extract record numbers.
`nature.add`	to extract as a factor with human understandable levels the nature of the name. Unordered levels are: status, molecule, journal, year, type, organelle, division and dbstrucinfo.
`plong.add`	to extract the plong.
`libel.add`	to extract the label of the name.
`sname.add`	to extract the short version of the name, that is without the first two characters.
`all.add`	to extract all (all flags set to TRUE).

Value

A data.frame with requested columns.

Author(s)

J.R. Lobry

References

See ACNUC physical structure at: http://doua.prabi.fr/databases/acnuc/structure.html.

citation("seqinr")