Provided by: ncbi-entrez-direct_14.6.20210224+dfsg-7_amd64
NAME
efilter - filter and/or sort NCBI Entrez search results
SYNOPSIS
efilter (efetch -filter) [-help] [-q[uery] str] [-sort field] [-days N] [-datetype field] [-mindate date] [-maxdate date] [-field field] [-pairs field] [-spell] [-pub type] [-journal name] [-released when] [-country name] [-feature type] [-location type] [-molecule type] [-organism type] [-source type] [-division code] [-status alive] [-type type] [-class class] [-kind pathway] [-pathway type]
DESCRIPTION
efilter filters and/or sorts results from a previous edirect(1) search. It has two implementations: a shell implementation on top of nquire(1) and a historical Perl implementation that amounts to running edirect -filter, enabled by setting the environment variable USE_NEW_EDIRECT to a false value as described in the ENVIRONMENT section. Some options are implementation-specific, as detailed below.
OPTIONS
Query Specification -q str (Perl implementation only) -query str Limit results to those matching the given query string. Document Order -sort field (Perl implementation only) Sort results by the given field. Date Constraint -days N Keep only results from the past N days. -datetype field Which date field (in abbreviated form) to consider. -mindate date Start of date range. -maxdate date End of date range. Limit by Field -field field (Perl implementation only) Query words individually in field. -pairs field (Perl implementation only) Query overlapping word pairs. Spell Check -spell (Perl implementation only) Correct misspellings in query. Publication Filters -pub type abstract, clinical, english, free, historical, journal, preprint, review, structured. -journal name pnas, "j bacteriol", ... -released when last_week, last_month, last_year, prev_years. Sequence Filters -country name usa:minnesota, united_kingdom, "pacific ocean", ... -feature type gene, mrna, cds, mat_peptide, ... -location type mitochondrion, chloroplast, plasmid, plastid. -molecule type genomic, mrna, trna, rrna, ncrna. -organism type animals, archaea, bacteria, eukaryotes, fungi, human, insects, mammals, plants, prokaryotes, protists, rodents, viruses, ... -source type genbank, insd, pdb, pir, refseq, swissprot, tpa -division code (shell implementation only) Three-letter GenBank division code: bct, con, env, est, gss, htc, htg, inv, mam, pat, phg, pln, pri, rod, sts, syn, una, vrl, or vrt. Gene Filters -status alive -type type coding, pseudo. SNP Filters -class class acceptor, donor, coding, frameshift, indel, intron, missense, nonsense, synonymous. Biosystems Filters -kind pathway -pathway type reactome, wikipathways. Miscellaneous Arguments -help Print usage information.
ENVIRONMENT
USE_NEW_EDIRECT Whether to use the current shell implementation or revert to the historical Perl implementation. Canonical true values are 1, on (case-insensitive), true (case-insensitive), and yes (case-insensitive); canonical false values are 0, off (case-insensitive), false (case-insensitive), and no (case-insensitive).
SEE ALSO
edirect(1), esearch(1), nquire(1), exclude-uid-lists(1).