Name

Lead Group

Time Required

Status

Layout Manager / Broker

UCSF - Scooter

checked in/awaiting feedback

Groups (formerly known as metanodes

UCSF, Agilent

1-2 Weeks to complete API implementation

CyGroup.java and modifications to CyNode.java complete. Need to modify XGMMLReader/Writer

Hyperedges

Aglient

1-2 weeks

finalizing documentation, testing

Document Event Handling (write Doclets)

Everyone

Remove Deprecation Warnings

Everyone

ongoing

ongoing

["VizMapUI"] Redesign

UCSD - Kei

Alpha release in March

Building mockups and cleaning backend code

Plugin Website / Automatic plugin download

UCSD - Peng, ISB - Sarah

10 weeks

ongoing

Linkout from Attribute Browser

UCSD - Kei

1-2 weeks

Prototype is already there, but need to integrate it with Linkout plugin.

Create cytoscape-helpdesk

UCSD - Peng

2 weeks

Peformance (speed + memory) profiling

UCSD - Mike, AMC - Piet

3 weeks

GINY Refactoring

UCSD - Mike

Properties / XML Config

UCSD,UCSD - Scooter

1 month (? Depends on the goal)

Planning

Cytoscape Class Cleanup

MSKCC - Ethan

CyAttributes Name Clashes

MSKCC - Ethan

Pathway Commons Connectivity

MSKCC, Gary

TBD based on scope/design meeting 2/15

Planning/Design

Filters

MSKCC - Ethan, UCSD - Mike

Combining Attributes / Formulas

MSKCC - Ethan, UCSF - Scooter, Alex

Library Reduction / Cleanup

ISB - Sarah

1 week

ongoing

Web Services / Database Connectivity Guidelines

ISB - Sarah, UCSF - Alex

2 weeks (more depending on goals)

ongong

Usability Assessment

Pasteur, ISB - Sarah

ongoing

ongoing

Testing

AMC - Piet, Pasteur - Tero

Undo Manager

AMC - Piet, UCSD - Mike

4 weeks

Interactive Layout (Bubble, Snap-To)

UCSF - Alex, Agilent - Allan K, MSKCC - Ben

1-2 weeks

bubble-router mostly implemented, nearing internal release to core developers

Layers / Annotation / UI for custom nodes

UCSF - Alex, Agilent - Allan K, MSKCC - Ben

TBD (requires further study of renderer)

some initial functionality implemented, and utilized in bubble router prototype

Papers

Everyone

Tutorials

Unassigned

Bug Fixing

Everyone

Name

Lead Group

Time Required

Status

Name

Lead Group

Time Required

Status

Custom Node / Edge Graphics (MIMS)

UCSF - Alex, Agilent - Allan K, MSKCC - Ben