Man page - cit2pmid(1)
Packages contains this manual
- join-into-groups-of(1)
- gbf2ref(1)
- quote-grouped-elements(1)
- disambiguate-nucleotides(1)
- gff-sort(1)
- pma2pme(1)
- pm-collect(1)
- pm-setup(1)
- systematic-mutations(1)
- sort-uniq-count-rank(1)
- archive-pids(1)
- efetch(1)
- pma2apa(1)
- gbf2fsa(1)
- intersect-uid-lists(1)
- skip-if-file-exists(1)
- archive-taxonomy(1)
- jsonl2xml(1)
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- einfo(1)
- gbf2facds(1)
- tbl2prod(1)
- cit2pmid(1)
- run-ncbi-converter(1)
- args2slice(1)
- xy-plot(1)
- xml2tbl(1)
- archive-nihocc(1)
- fsa2xml(1)
- download-pubmed(1)
- just-top-hits(1)
- sort-uniq-count(1)
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- json2xml(1)
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- print-missing-subranges(1)
- word-at-a-time(1)
- between-two-genes(1)
- esearch(1)
- xfilter(1)
- einfo.ncbi(1)
- efilter(1)
- gbf2info(1)
- pmc2bioc(1)
- download-ncbi-software(1)
- filter-columns(1)
- pm-refresh(1)
- edict(1)
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- gbf2xml(1)
- gff2xml(1)
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- pmc2info(1)
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- bsmp2info(1)
- pm-clean(1)
- esample(1)
- gene2range(1)
- print-columns(1)
- scn2xml(1)
- xfetch(1)
- archive-pubmed(1)
- ds2pme(1)
- tbl2xml(1)
- xml2fsa(1)
- xlink(1)
- download-flatfile(1)
- reorder-columns(1)
- blst2tkns(1)
- exclude-uid-lists(1)
- sort-table(1)
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- transmute(1)
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- pair-at-a-time(1)
- spdi2tbl(1)
- ecollect(1)
- accn-at-a-time(1)
- custom-index(1)
- gbf2tbl(1)
- align-columns(1)
- asn2ref(1)
- pm-prepare(1)
- elink(1)
- archive-nlmnlp(1)
- xtract(1)
- gm2segs(1)
- epost(1)
- hgvs2spdi(1)
- esummary(1)
- rchive(1)
- refseq-nm-cds(1)
- ini2xml(1)
- xinfo(1)
- xsearch(1)
- csv2xml(1)
- uniq-table(1)
- yaml2xml(1)
- ref2pmid(1)
- filter-record(1)
- fuse-ranges(1)
- nquire(1)
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apt-get install ncbi-entrez-direct
Manual
CIT2PMID
NAMESYNOPSIS
DESCRIPTION
OPTIONS
ENVIRONMENT
SEE ALSO
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 archive-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 xsearch -exact 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_LOCAL_ARCHIVE
Local archive directory to use. Expected to hold an absolute path; mandatory for any mode besides -remote and -eutils .
EDIRECT_LOCAL_WORKING
Directory to hold intermediate subtrees; expected to hold an absolute path. Defaults to the local archive directory when not set.
SEE ALSO
archive-pubmed (1), ecollect (1), edict (1), esearch (1), nquire (1), ref2pmid (1), transmute (1), xfetch (1), xlink (1), xsearch (1).