cit2pmid - find candidate NCBI PubMed identifiers for a citation
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]
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)).
- -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.
- EDIRECT_PUBMED_MASTER
- Local archive directory to use. Expected to hold an
absolute path; mandatory for any mode besides -remote and
-eutils.
edict(1),
esearch(1),
fetch-pubmed(1),
index-pubmed(1),
nquire(1),
phrase-search(1),
ref2pmid(1),
transmute(1).