Open Drug Discovery Toolkit

简介: Open Drug Discovery Toolkit

ODDT介绍:


The Open Drug Discovery Toolkit was developed as a free and open source tool for both computer aided drug discovery (CADD) developers and researchers. ODDT reimplements many state-of-the-art methods, such as machine learning scoring functions (RF-Score and NNScore) and wraps other external software to ease the process of developing CADD pipelines. ODDT is an out-of-the-box solution designed to be easily customizable and extensible. Therefore, users are strongly encouraged to extend it and develop new methods. We here present three use cases for ODDT in common tasks in computer-aided drug discovery

硬件环境:

image.png

ODDT安装:

安装安装Anaconda(Python3.6)点击打开链接

<事先编译安装OpenBabel或者RDKit>点击打开链接

pip install oddt
或者
python -m pip install oddt

image.png

ODDT模块:

image.png

ODDT实例之分子过滤:

#!/usr/bin/python2.7
from oddt.virtualscreening import virtualscreening as vs
pipeline = vs(n_cpu=14)
pipeline.load_ligands('mol2', 'molecules.mol2')
# Filter ligands by weight and solubility
pipeline.apply_filter('150 < mol.molwt < 350')
pipeline.apply_filter('0 < mol.logp < 5')
pipeline.write('mol2', 'filter_out.mol2')

image.png

参考:

点击打开链接ODDT-GitHub

点击打开链接oddt-docs


目录
相关文章
|
4月前
|
消息中间件 安全 关系型数据库
OpenIM (Open-Source Instant Messaging) Mac Deployment Guide
OpenIM (Open-Source Instant Messaging) Mac Deployment Guide
97 0
|
12月前
|
Web App开发 人工智能 JSON
使用 cx recipe 安装 Hybris Commerce Cloud 之后,遇到 indexer workder failed 错误
使用 cx recipe 安装 Hybris Commerce Cloud 之后,遇到 indexer workder failed 错误
|
Java Maven Android开发
《Cloud Toolkit User Guide》
Alibaba Cloud Toolkit,面向 IDE(如 Eclipse 或 IntelliJ IDEA )的插件,帮助开发者更高效的开发、测试、诊断并部署适合云端运行的应用
38168 1
|
SDN
The Alibaba Cloud Appearance at Open Network Summit 2018
Alibaba Cloud attended Open Network Summit North America in Los Angeles during Mar 26th to 29th.
1664 0
The Alibaba Cloud Appearance at Open Network Summit 2018