This library contains Python functions to send and access accessible data from Collaboratory and EGA servers. The functions in the library contain wrapper to EGA and Collaboratory API.

How to Install

Make sure that you have python 2.7 and pip (https://pypi.python.org/pypi/pip) installed.

Clone this repository and install the package using pip:

$ git clone https://github.com/icgc-dcc/icgconnect.git
$ cd icgconnect
$ pip install .

ICGConnect contains many helpful functions to communicate with different servers:

• EGA - https://ega-archive.org/submission/programmatic-submissions
• Collaboratory - http://docs.icgc.org/cloud/guide/
• ICGC - http://docs.icgc.org/portal/api/

Help

You can access the list of functions and definitions using pydoc - https://docs.python.org/2/library/pydoc.html

EGA

Wrapper functions for EGA submission and downloand API

EGA Submission

pydoc icgconnect.ega.submission

EGA Download

pydoc icgconnect.ega.download

Collaboratory

pydoc icgconnect.ega.collab

Amazon S3 (AWS)

pydoc icgconnect.aws

ICGC

pydoc icgconnect.icgc