Interface to WormBase (www.wormbase.org) curation data, including literature management and NLP functions
Project description
WBtools
Interface to WormBase curation database and Text Mining functions
Access WormBase paper corpus information by loading pdf files (converted to txt) and curation info from the WormBase database. The package also exposes text mining functions on papers' fulltext.
Installation
pip install wbtools
Usage example
Get sentences from a WormBase paper
from wbtools.literature.corpus import CorpusManager
paper_id = "000050564"
cm = CorpusManager()
cm.load_from_wb_database(db_name="wb_dbname", db_user="wb_dbuser", db_password="wb_dbpasswd", db_host="wb_dbhost",
paper_ids=[paper_id])
sentences = cm.get_paper(paper_id).get_text_docs(split_sentences=True)
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Filter files by name, interpreter, ABI, and platform.
If you're not sure about the file name format, learn more about wheel file names.
Copy a direct link to the current filters
File details
Details for the file wbtools-1.0.14.tar.gz.
File metadata
- Download URL: wbtools-1.0.14.tar.gz
- Upload date:
- Size: 21.4 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.2.0 pkginfo/1.6.1 requests/2.21.0 setuptools/50.3.2 requests-toolbelt/0.9.1 tqdm/4.51.0 CPython/3.8.5
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
77531b656853fa9e2ee2ad955fe0b26990e18175de11dbc7bf1f867637b834cb
|
|
| MD5 |
f3048c21a29360049403706283e825ee
|
|
| BLAKE2b-256 |
b929c30a830ce611c4558e78b8c9cd48a06578317a7e0b1d5408ceb0201db776
|
File details
Details for the file wbtools-1.0.14-py3-none-any.whl.
File metadata
- Download URL: wbtools-1.0.14-py3-none-any.whl
- Upload date:
- Size: 32.5 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.2.0 pkginfo/1.6.1 requests/2.21.0 setuptools/50.3.2 requests-toolbelt/0.9.1 tqdm/4.51.0 CPython/3.8.5
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
7c8d2c80a7018e26f0e1fdf299dfbff3ae2867854ae412d6c6468671f855746a
|
|
| MD5 |
025a093cba2d80fb91626db68b8d4887
|
|
| BLAKE2b-256 |
25b89a1b994d78a5cc2174e9df3b8b25935b44e34162921a7fbb43c42b160077
|
