nf-core/entrezdirect/esearch @ 0.0.0-6c4ed3a
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 | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:15:00 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fentrezdirect%2Fesearch/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/entrezdirect/esearch/blobs/sha256:28d333454a18b8c4edb4771e804b4bc6d7ee8278e528e528ded6fc444edf02a6 |
| Size | 2.8 KB |
| Checksum | sha256:28d333454a18b8c4edb4771e804b4bc6d7ee8278e528e528ded6fc444edf02a6 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:15:00 (UTC) | 3 | 2.8 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:10:55 (UTC) | 3 | 2.8 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:58:45 (UTC) | 3 | 2.8 KB |