Description

Searches a term in a public NCBI database

Input

name:type
description
pattern

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’ ]

term

:string

Entrez text query. All special characters must be URL encoded. Spaces may be replaced by ’+’ signs.

database

:string

Value must be a valid Entrez database name.

Output

name:type
description
pattern

xml

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’ ]

*.xml

:file

XML file containing search results

*.xml

versions_esearch

${task.process}

:string

The name of the process

ENTREZDIRECT

:string

The name of the tool

esearch -version 2>&1

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions

${task.process}

:string

The name of the process

ENTREZDIRECT

:string

The name of the tool

esearch -version 2>&1

:eval

The expression to obtain the version of the tool

Tools

entrezdirect
PUBLIC DOMAIN

Entrez Direct (EDirect) is a method for accessing the NCBI's set of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window. Functions take search terms from command line arguments. Individual operations are combined to build multi-step queries. Record retrieval and formatting normally complete the process.

ncbi.nlm.nih.gov/books/NBK179288 ncbi.nlm.nih.gov/books/NBK25501 https://www.ncbi.nlm.nih.gov/books/NBK25498/ 10.1016/S0076-6879(96)66012-1
maintainer
Github user alxndrdiaz
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