readfirstrec: Low level function to get the record count of the specified...

In seqinr: Biological Sequences Retrieval and Analysis

Low level function to get the record count of the specified ACNUC index file

Description

Called without arguments, the list of available values for argument type is returned.

Usage

readfirstrec(socket = autosocket(), type)

Arguments

socket	an object of class sockconn connecting to a remote ACNUC database (default is a socket to the last opened database).
type	the ACNUC index file

Details

Available index files are:

AUT

AUTHOR one record for each author name (last name only, no initials)

BIB

BIBLIO one record for each reference

ACC

ACCESS one record for each accession number

SMJ

SMJYT one record for each status, molecule, journal, year, type, organelle, division, and db structure information

SUB

SUBSEQ one record for each parent or sub-sequence

LOC

LOCUS one record for each parent sequence

KEY

KEYWORDS one record for each keyword

SPEC

SPECIES one record for each taxon

SHRT

SHORTL mostly, one record for each element of a short list

LNG

LONGL one record for each group of SUBINLNG elements of a long list

EXT

EXTRACT (for nucleotide databases only) one record for each exon of each subsequence

TXT

TEXT one lrtxt-character record for each label of a species, keyword, or SMJYT

Value

The record count of ACNUC index file, or NA if missing (typically when asking for type = EXT on a protein database).

Author(s)

J.R. Lobry

References

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

citation("seqinr")

See Also

choosebank

Examples

## Not run: 
# Need internet connection
  choosebank("genbank")
  allowedtype <- readfirstrec()
  sapply(allowedtype, function(x) readfirstrec(type = x))
  
## End(Not run)

seqinr documentation built on May 29, 2024, 6:36 a.m.