NAME
download-ncbi-data - download specific data from NCBI’s FTP site
SYNOPSIS
download-ncbi-data bioconcepts|generif|meshtree|taxnames|serials|journals|nihocc|pmc-oa|pmc-bioc|oa-list|oa-book accession|carotene|globin|human|smear
DESCRIPTION
download-ncbi-data downloads the requested data to the current directory.
OPTIONS
bioconcepts
Download mappings from chemical, disease, and gene names to PubTatorCentral unless already present.
generif
Download GeneRif data, unless already present, and extract some summaries.
taxnames
Download a taxonomic database and produce a table summarizing correspondences between taxonomic IDs and scientific or common names.
serials
Download a database of serials indexed by NLM and extract some summaries.
journals
Download a database of journals indexed by PubMed and extract some summaries.
meshtree
Download MeSH data and extract some summaries.
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nihocc |
Download NIH Open Citation Collection data. | ||
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pmc-oa |
Download PubMed Central open-access archives in traditional format, unless already present. |
pmc-bioc
Download PubMed Central open-access archives in BioConcepts format, unless already present.
oa-list
Download a list of open access books, unless already present, and extract a summary.
oa-book accession
Download the open access book with the specified accession. First produce a list and summary as above if necessary.
carotene
Download and unzip sample PubmedArticleSet XML for carotene.
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globin |
Download and unzip sample INSDSet XML for globin. | ||
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human |
Download and unzip sample gene DocumentSummarySet XML for humans. | ||
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smear |
Download and unzip sample Seq-submit ASN.1 for a fruit fly nucleotide-protein set with annotations from GeneMachine and BLAST. |
SEE ALSO
archive-pubmed(1), download-ncbi-software(1), download-pmc(1), download-pubmed(1), download-sequence(1), index-extras(1), index-pubmed(1), phrase-search(1), nquire(1), xtract(1).