NAME¶

cit2pmid - find candidate NCBI PubMed identifiers for a citation

SYNOPSIS¶

cit2pmid [-debug] [-strict] [-remote|-eutils|-local|-exact|-verify] [-asn file|-cit file] [-title|-TITL str] [-author|-FAUT|-LAUT str] [-journal|-JOUR str] [-year|-YEAR|-PDAT str] [-volume|-VOL str] [-issue|-ISS str] [-page[s]|-PAGE str]

DESCRIPTION¶

cit2pmid tries to identify NCBI PubMed identifiers corresponding to a supplied citation. Some modes search an indexed local NCBI PubMed archive (as prepared by index-pubmed(1)).

OPTIONS¶

-debug

Trace some aspects of execution.

-strict

Perform stricter matching (only in -local mode, at least for now).

-remote

Use nquire -citmatch remote service (default).

-eutils

Use esearch remote service.

-local

Use transmute -r2p (ref2pmid) for relaxed search with local archive.

-exact

Use phrase-search for strict matching with local archive.

-verify

Query against local archive with strict (but not -exact) matching then confirm positive candidates via citmatch.

-asn file

Read NCBI Pub ASN.1 from file (- for standard input). Must be the only query specification.

-cit file

Read CITATION XML from file (- for standard input). Must be the only query specification.

-title|-TITL str

Article title; may need other fields to disambiguate, especially if incomplete.

-author str

Author name (last name, optionally followed by initials); may appear twice, for first and last authors. (Otherwise, taken to be first author only.)

-FAUT str

Explicitly name first author.

-LAUT str

Explicitly name last author.

-journal|-JOUR str

Journal name.

-year|-YEAR|-PDAT str

Publication year.

-volume|-VOL str

Journal volume.

-issue|-ISS str

Journal issue.

-page[s]|-PAGE str

Journal page, or hyphenated range.

ENVIRONMENT¶

EDIRECT_PUBMED_MASTER

Local archive directory to use. Expected to hold an absolute path; mandatory for any mode besides -remote and -eutils.

SEE ALSO¶

edict(1), esearch(1), fetch-pubmed(1), index-pubmed(1), nquire(1), phrase-search(1), ref2pmid(1), transmute(1).