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Difference between revisions of "Access Chipster"

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== Introduction ==
== Introduction ==
This guide is intended for researchers who want to use [http://chipster.csc.fi/ Chipster (v3.12.3)], an user-friendly software for analyzing high-throughput data such as NGS and microarrays, in the cloud-based resources provided by [https://wiki.egi.eu/wiki/Long-tail_of_science EGI].
This guide is intended for researchers who want to use [http://chipster.csc.fi/ Chipster (v3.12.3)], an user-friendly software for analyzing high-throughput data such as NGS and microarrays, in the cloud-based resources provided by [https://wiki.egi.eu/wiki/Long-tail_of_science EGI]. The software contains over 400 analysis tools and a large collection of reference genomes. Users can save and share automatic analysis workflows, and visualize data interactively using for example the built-in genome browser.


The Chipster server configured at [https://appdb.egi.eu/store/site/cesga CESGA] offers:
The Chipster server configured at [https://appdb.egi.eu/store/site/cesga CESGA] offers:

Revision as of 11:23, 3 June 2019

Access Chipster

Introduction

This guide is intended for researchers who want to use Chipster (v3.12.3), an user-friendly software for analyzing high-throughput data such as NGS and microarrays, in the cloud-based resources provided by EGI. The software contains over 400 analysis tools and a large collection of reference genomes. Users can save and share automatic analysis workflows, and visualize data interactively using for example the built-in genome browser.

The Chipster server configured at CESGA offers:

  • 8 vCPU cores,
  • 32GB of RAM,
  • 1TB in /data
  • Software and tools (v3.12.3) are in /cvmfs/chipster.egi.eu/

This how-to has been tested in the EGI Applications on Demand Infrastructure.

The only pre-requisite to access and use the Chipster testbed is to be a member of this infrastructure.

Objectives

In this guide we will show how to

  • Create a temporary Chipster account to access the testbed;
  • Use the temporary account to access and run the bio-informatics applications.

How to access the Chipster testbed

To access the Chipster tested, a valid account is needed.

  • If the user already HAS a valid user name and password for this Chipster service, he/she can launch the Chipster client from the Chipster
  • If the user did NOT use this Chipster server before or if username and password have expired, please use this link to generate a new one (see next section for more details).
    • By default, the password will be valid for one month.

How to create a temporary account

In this section we will show how to create/renew your temporary account using the JSR 286 portlet available in the FutureGateway Science Gateway.

By default, a temporary account to access the Chipster server is valid for one month.

To create/renew your temporary account:

  • Click on the "Show form" button as showed below. By default, the Science Gateway will automatically generate a new password for the user.
  • Click on "Execute" to trigger the creation/update of the account in the Chipster testbed. You can monitor the execution of the task clicking in the "Show" button.
  • When the account is create/renewed, the user can access the server


Chipster.png