Designing, Executing, Reusing and Sharing Workflows: Taverna and

myExperiment Supporting the in silico Experiment Life Cycle

Katy WolstencroftPaul Fisher

University of Manchester

Workflow Environments

Taverna Workflow design and

execution environment Access to local and

remote resources and analysis tools

Automation of data flow Iteration over large data

sets 50,000 downloads Used by 350+

organisations

myExperiment Workflow sharing and

publishing environment Web 2.0 Social network Sharing workflows,

expertise, knowledge and/or data

964 users 301 workflows

Taverna

For bioinformaticians, NOT biologists Used for

Data gathering annotation pipelines, data integration, model

population Data analysis

microarray, proteomics, Data mining and knowledge integration

Ontology building

myExperiment

Supports bioinformaticians but also enables biologists to run ready-made workflows

Intended for ANY workflows, not just Taverna Already working with Triana

Allows “just enough” sharing between groups/communities Who can look at your workflow Who can download your workflow Who can modify your workflow Who can run your workflow

Google Gadgets

In Silico Life Cycle

Taverna

In Silico Life Cycle

myGrid Development

Started 2001 – EPSRC E-Science project

2005 – OMII-UK

myExperiment - started 2007 Open Source Funded until after 2010

myGrid Development

Demo

Current work

Speed and Scalability

Taverna 2 enactor Support for long running workflows Large scale data – industrial bioinformatics Data streaming Passing data by reference Integration with established computing

platforms

Extensibility and Ease of Use

Drag and drop workflow building More content – greater pool of workflows in

myExperiment More components – gathering together

commonly used groups of services Shim libraries – for combining incompatible

services Service and workflow annotation checking

Curation by Experts

Curation by the Community

Automated Curation

refinevalidate

refinevalidate

Curation by Developers

seed seed

refinevalidate

seed

BioCatalogueJoint Manchester-EBI

Toolkits “Taverna Inside”

Workflows under the hood e-Laboratories (portals)

Systems Biology, e-Health Dashboards

configurable platforms for small biological communities

Visualisation clients that call workflows in the background

UTOPIAPettifer, Kell, University of Manchester

Toolkits “Taverna Inside”Workflow development pipeline

Workflows developed by bioinformaticians

Enacted locally

E-Labs, Dashboards and 3rd party clients

Social support for bioinformaticians to find and reuse workflows and expertiseAccess to ready made workflows for biologists

Workflows enacted locally Taverna remote execution service (T-Rex)

Social support to find and reuse workflows and expertise

CONFIGURABLE access to ready made workflows for biologists

Workflows embedded in applications and combined with data management systems

Come and see us Booth 20 Manchester Bioinformatics

Development is user driven – we need your input!

Try out myExperiment Try out Taverna and T2 Try out the new drag and drop interface Do you want workflows behind your tools? ….and come and tell us what you think

http://www.myexperiment.org http://taverna.sourceforge.net