nf-core/entrezdirect/esearch @ 0.0.0-0c7146d
Summary
Searches a term in a public NCBI database
Get started
Add the following snippet to your workflow script to include this module.
include { ENTREZDIRECT_ESEARCH } from 'nf-core/entrezdirect/esearch'
License
MIT License
Process
Name
|
ENTREZDIRECT_ESEARCH |
|---|
Input
2 channels
#1
tuple
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
2 channels
#1
xml
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.xml
file
|
XML file containing search results *.xml
|
#2
versions_esearch
tuple
${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 |
| Tool | Description | Homepage |
|---|---|---|
| entrezdirect | 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. | https://www.ncbi.nlm.nih.gov/books/NBK179288/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:37:16 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fentrezdirect%2Fesearch/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/entrezdirect/esearch/blobs/sha256:dfa869bd720a82c69e0b80783555fc0151ebbb97f8227d032a974c1b2a1e8aeb |
| Size | 2.8 KB |
| Checksum | sha256:dfa869bd720a82c69e0b80783555fc0151ebbb97f8227d032a974c1b2a1e8aeb |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:37:16 (UTC) | 1 | 2.8 KB | - |