intermine-ws-python-docs

Tutorials for the InterMine Python web client

This repository comprises of tutorials to help you get familiarised with the intermine-python package. The tutorials are in the form of Jupyter-Notebooks. You can either install Jupyter on your machine, download the tutorials and then run them on your local machine or you can use Jupyter's notebook viewer facility to view the tutorials online. You can find the NBViewer service at: https://nbviewer.jupyter.org/

If you already have python installed on your machine, you can pip install Jupyter. If you do not have Python on your machine, you can download and install Anaconda as it would install Python along with Jupyter and many other packages. http://jupyter.readthedocs.io/en/latest/install.html

Table of Contents

Tutorial 0: Registry Features

The utilies of extracting data about mine/organism using registry

Tutorial 1: Basics of a Query

The basics that you need to create and run a query.

Tutorial 2: Adding Constraints

Adding simple constraints to make your queries more useful.

Tutorial 3: More about constraints

Different types of constraints.

Tutorial 4: Query Features

Joins and Path Descriptions.

Tutorial 5: Query Results

Dealing with results of your query.

Tutorial 6: Advanced Results Management

Filtering and Processing Results

Tutorial 7: Templates

Basics of calling a template.

Tutorial 8: Accessing Templates

Authoring and Accessing your templates.

Tutorial 9: Lists

Creating and saving lists from identifiers.

Tutorial 10: Enrichment Calculations

Performing Enrichment calculations on lists.

Tutorial 11: Combining Lists

Combining lists using set operations.

Tutorial 12: More about Queries

Managing queries effectively

Tutorial 13: Query Manager

Usage of query_manager

Tutorial 14: Visualisation in InterMine

Plotting graphs

Tutorial 15: Simple Ways to Manipulate the Model

Utilising the module to get details about the data model of various mines