NCBIQuery
Python tool of National Center for Biotechnology Information (NCBI) paper query based on E-utilities.
Installing
pip install NCBIQuery
Usage
See PubMed Help for detailed search field tags and usages.
query_id()
Query paper ids from search text.
Arguments:
| Parameter | Default | Description |
|---|---|---|
| db | pubmed | The database which you search from |
| search_field_tags | tw | A list of (or a single) search field tag(s) |
| contents | A list of (or a single) search content(s) corresponding to each tag | |
| retmax | 10000 | The maximum number of papers to return (cannot exceed 10000) |
Return: A list of paper ids.
query_abstract()
Get paper abstracts from search text.
Arguments:
| Parameter | Default | Description |
|---|---|---|
| db | pubmed | The database which you search from |
| search_field_tags | tw | A list of (or a single) search field tag(s) |
| contents | A list of (or a single) search content(s) corresponding to each tag | |
| retmax | 10000 | The maximum number of papers to return (cannot exceed 10000) |
Return: A list of paper abstracts.
id_abstract()
Get paper abstracts from id.
Arguments:
| Parameter | Default | Description |
|---|---|---|
| search_ids | A list of (or a single) paper id(s) | |
| db | pubmed | The database from which you search from |
Return: A list of paper abstracts.
Example
>>> import NCBIQuery
>>> print(NCBIQuery.query_id('pubmed', ['tw'], ['cell'],retmax=50))
>>> print(NCBIQuery.query_abstract('pubmed', ['tw','pt', 'dp'], ['cell','review', '1990/01/01:2023/01/01'], retmax=50))
>>> print()
