Plans and Goals/Fall 2015: Difference between revisions

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== Current Plans and Goals (Fall '15) ==
=== [[User:Connor Gramazio|Connor]] ===
=== [[User:Connor Gramazio|Connor]] ===
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.


===== '''Dissertation''' =====
===== '''Dissertation''' =====
<s>
* <s>By 2 October: '''<span style="color:steelblue">send dhl updated proposal draft</span>'''</s>
* By June 5: '''<span style="color:steelblue">send out complete first draft to dissertation committee</span>'''
* By 1 November: '''<span style="color:steelblue">schedule proposal date</span>'''
</s>
 
* By August 5: '''<span style="color:steelblue">send out complete first draft to dissertation committee</span>'''
====='''Fellowships'''=====
* By September 4: '''<span style="color:steelblue">schedule proposal date</span>'''
* <s>Submit applications for Adobe, Facebook, and any other eligible fellowships</s>
* <s>update website</s>
* <s>convert c.v. to XeTeX</s>


===== '''Genomics''' =====
===== '''Genomics''' =====
* Weekly: check up on MAGI interaction logs and process them through BLADE to verify collection is going smoothly
* Weekly: check up on MAGI interaction log scraping
<s>
* By 31 October: '''<span style="color:steelblue">(re)submit latest draft to TVCG</span>'''
* By June 26: respond to VIS review feedback
* <s>By 25 November: '''<span style="color:steelblue">demo BLADE prototype with implemented mining techniques</span>'''</s>
* By June 30: complete MAGI view redesign and accompanying logging refactor
* By 20 December: Code-freeze BLADE devlopment to prepare for evaluation
* By June 30: create local MAGI annotation development sandbox for ETA development
</s>
(VIS paper rejections = reshuffle)
* By July 27: complete genomics paper rewrite
* By July 31: create local MAGI annotation development sandbox for ETA development
* By August 12: '''<span style="color:steelblue">create stand-alone ETA prototype that displays querryable network with annotation overlay</span>'''
* By September 4: draft a high-level ETA contribution document to ID ultimate project direction (e.g., drop topic modeling)
 


===== '''Color''' =====
===== '''Color''' =====
<s>
* By 1 November: '''<span style="color:steelblue">(re)submit paper to TVCG</span>'''
* By June 26: respond to VIS review feedback
* Help Karen prep heatmap color paper for submission
* By June 30: prototype D3 decomposition-by-category feature of Colorgorical
* By July 10: prototype new Colorgorical scoring functions using Bayesian optimization procedure
* By August 7: '''<span style="color:steelblue">complete integration of new scoring functions into Colorgorical</span>'''
</s>
(VIS paper rejections = reshuffle)
* By July 27: complete colorgorical paper rewrite
* By August 21:  '''<span style="color:steelblue">integrate new Colorgorical scoring functions using Bayesian optimization procedure</span>'''
* By September 4: prototype D3 decomposition-by-category feature of Colorgorical


===== '''Other''' =====
===== '''Other''' =====
* '''<span style="color:steelblue">Cut back on non-dissertation projects to 20% time by end of summer</span>'''
* Complete Sheridan Certificate I program
* <s>Give a great color lecture for Remco's infovis class</s>


=== [[User:Hua Guo|Hua]] ===
=== [[User:Hua Guo|Hua]] ===
*<s>Cog grant proposal</s>
** <s>By Sep. 11: take one pass through the proposal to resolve any inconsistency in contents</s>
* '''BraiNet implementation'''
** By Oct. 30: implement basic corpus analysis functionalities
*** (By Sep. 18) Context-based retrieval: given a block of texts, use techniques such as latent semantic analysis or topic modeling to extract relevant key terms
*** <s>(By Sep. 25) Three way linking between primary texts (e.g. a word document, a piece of plain text, a bibtex file), concepts and evidence</s>
*** <s>(By Oct. 9) Support search within a small set of publications provided by the user (e.g. a bibtex file)</s>
*** (By Oct.12) Have executable sketches of ThoughtFlow's interface design
*** <s>(By Oct. 23) Meet with Badre for feedback</s>
*** (By Oct. 30) Case papers: lets the user specify case papers in addition to supplying texts or terms; the tool will then use the case papers as constraints and return a set of papers where the set 1) is a subset of all papers associated with the given texts or terms; 2) contains the case papers; 3) is as small as possible.
** By Nov. 27: implement literature corpus visualizations
*** (By Nov. 13) theme river visualization that shows how a set of concepts contained in a body of texts (e.g. a grant proposal; a notebook kept by the researcher) evolves over time - what concepts have been added / removed? how much evidence has been added for each concept?
*** (By Nov. 27) refined user interface for exploring the set of concepts and evidence (network visualization?)
* '''Two VIS talks'''
** <s>By Oct. 2: give practice talks to the speech and writing coach</s>
** <s>By Oct. 9: give practice talks to scivis / dhlgroup</s>
** <s>By Oct. 30: deliver the talks at VIS!</s>
* '''Event sequence visualization paper'''
**<s>By Sep. 11: first draft of the blog post sent</s>
**<s> By Sep. 23: second revision of the blog post ready</s>
* '''BraiNet user study'''
** By Dec 4: run a pilot study with two participants
** By Dec 11: study design refined based on pilot study


=== [[User:Steven Gomez|Steve]] ===
=== [[User:Steven Gomez|Steve]] ===
Line 92: Line 104:


=== [[User:David Laidlaw|David]] ===
=== [[User:David Laidlaw|David]] ===
* yurt
** working well enough for cs137
** working well enough for VT experiment
** press
** paper out about R&D, model on Cruz
** hw and low-level software testing/reliability plan
** application software development easier (asf?)
* VT
** first experiment complete, written, and out!
* orthopedics
** tools continuing to run well (despite upgrade)
** renewal with Trey
** diffusion imaging
* longer-term funding progress
** cognition
** VR
** brains
** trey
** STC?
* good CS137
* keep all advisees moving along appropriately


=== [[User:Wesley Miller|Wesley]] ===
=== [[User:Wesley Miller|Wesley]] ===
Line 113: Line 147:
* Cave/Yurt
* Cave/Yurt
** Complete user study with Wesley
** Complete user study with Wesley
** Design next experiment for VT project
** Work on VR volume visualization (3D Visualizer/CaveVOX/...)
** Work on VR volume visualization (3D Visualizer/CaveVOX/...)
** Get more concrete collaboration with students of Robbert Creton or Kristi Wharton
** Get more concrete collaboration with students of Robbert Creton or Kristi Wharton
** Help out with Demos when needed
** Help out with Demos when needed
** Explore use of VTK in VRG3D


* CS137
* CS137
Line 124: Line 160:
* Fitts' Law
* Fitts' Law
** Work on paper with HCI seminar group
** Work on paper with HCI seminar group
* Thesis Project
** Restart discussions with Derek and Kristi
** Explore collaborations for genome folding visualizations
** by December: Create Thesis proposal draft


=== [[User:Tom Sgouros|Tom]] ===
=== [[User:Tom Sgouros|Tom]] ===
=== [[User:Bruce Campbell|Bruce]] ===
* Funding
** Raise funding to support Visiting Scientist position for 2016
** Submit proposals to STAC, NSF ITEST, and ONR by end of 2015
** Create ten-page white paper for Jan 31, 2016 to send to other funding organizations
* Cave/Yurt
** Axial Seamount application:
*** Implement Animation controls by Dec 31, 2015
*** Implement Grab and Manipulate interaction by Jan 30, 2016
** Create Plan for 2016 work by Jan 30, 2016 (promote here):
*** Continuous overall contribution: Useful Temporal Interaction GUIs
*** Prioritize other COVE (http://cove.ocean.washington.edu) features integration
*** Pursue Python interpreter integration unless other Yurt methods pan out
*** Anticipate STAC/ITEST programming needs for Yurt
*** Continue to pursue possible student participation
* CS 137
** Continue to attend and revisit notes from UW INDE 543
** CG&A ''Art on Graphics'' column to layout by February 15, 2016
* Distributed Cognition
** Create updated mind map (with bibliography) by Dec 31, 2015
** Create d-cog metric and test plan to support VIS/VAST paper by Jan 15, 2015
** VIS/VAST paper abstract ready by March deadline
* Personal Development
** Continuous: Improve research process effectiveness including a better parallel writing process
** Continuous: Improve conciseness in e-mail and research-related writing
** Continuous: Improve at sketching ideas


=== [[User:Josh Tveite|Josh]] ===
=== [[User:Josh Tveite|Josh]] ===
Line 137: Line 210:
** Start to learn how to work in the Yurt effectively (likely through taking CS 137)
** Start to learn how to work in the Yurt effectively (likely through taking CS 137)
** Find a project to work on in the Yurt.
** Find a project to work on in the Yurt.
=== [[User:Wallace Lages|Wallace]] ===
*Finish experiment and write IEEEVR paper
* Finish VR volume renderer
** last changes: added another kernel for gpu pre processing, copying one PBO to another in the GPU. Simple kernel (just remove part of the dataset)
** Issues: Interaction pass takes a long time on CPU
** Options: add spatial structure, perform interaction on GPU
** Other improvements: 1) reduce original RGBA 3d texture to mono -> improve memory usage 2) remove 3d texture altogether and implement filtering in the shader -> possible faster copy in one pass, 3) change to splatting 4) refactor code
*Reimplement Volume Cracker like interaction
**Implement on VR
**Develop hardware
* Finish new interaction technique
**Finish design
**Implement software
**Implement technique on VR


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Latest revision as of 15:05, 11 January 2016

Current Plans and Goals (Fall '15)

Connor

Boldfaced goals are those that mark the high-level success of each project.

Dissertation
  • By 2 October: send dhl updated proposal draft
  • By 1 November: schedule proposal date
Fellowships
  • Submit applications for Adobe, Facebook, and any other eligible fellowships
  • update website
  • convert c.v. to XeTeX
Genomics
  • Weekly: check up on MAGI interaction log scraping
  • By 31 October: (re)submit latest draft to TVCG
  • By 25 November: demo BLADE prototype with implemented mining techniques
  • By 20 December: Code-freeze BLADE devlopment to prepare for evaluation
Color
  • By 1 November: (re)submit paper to TVCG
  • Help Karen prep heatmap color paper for submission
Other
  • Complete Sheridan Certificate I program
  • Give a great color lecture for Remco's infovis class

Hua

  • Cog grant proposal
    • By Sep. 11: take one pass through the proposal to resolve any inconsistency in contents
  • BraiNet implementation
    • By Oct. 30: implement basic corpus analysis functionalities
      • (By Sep. 18) Context-based retrieval: given a block of texts, use techniques such as latent semantic analysis or topic modeling to extract relevant key terms
      • (By Sep. 25) Three way linking between primary texts (e.g. a word document, a piece of plain text, a bibtex file), concepts and evidence
      • (By Oct. 9) Support search within a small set of publications provided by the user (e.g. a bibtex file)
      • (By Oct.12) Have executable sketches of ThoughtFlow's interface design
      • (By Oct. 23) Meet with Badre for feedback
      • (By Oct. 30) Case papers: lets the user specify case papers in addition to supplying texts or terms; the tool will then use the case papers as constraints and return a set of papers where the set 1) is a subset of all papers associated with the given texts or terms; 2) contains the case papers; 3) is as small as possible.
    • By Nov. 27: implement literature corpus visualizations
      • (By Nov. 13) theme river visualization that shows how a set of concepts contained in a body of texts (e.g. a grant proposal; a notebook kept by the researcher) evolves over time - what concepts have been added / removed? how much evidence has been added for each concept?
      • (By Nov. 27) refined user interface for exploring the set of concepts and evidence (network visualization?)
  • Two VIS talks
    • By Oct. 2: give practice talks to the speech and writing coach
    • By Oct. 9: give practice talks to scivis / dhlgroup
    • By Oct. 30: deliver the talks at VIS!
  • Event sequence visualization paper
    • By Sep. 11: first draft of the blog post sent
    • By Sep. 23: second revision of the blog post ready
  • BraiNet user study
    • By Dec 4: run a pilot study with two participants
    • By Dec 11: study design refined based on pilot study

Steve

  • Dissertation
    • By June 30: committee settled ✓
    • By June 30: dissertation draft completed and circulated ✓
      • Address feedback for dissertation as it comes in
    • By June 30: get scheduling feedback for committee for mid-August defense ✓
    • By early July: resolve defense scheduling ✓
    • By mid July: submit defense, date, meta-data, and thesis draft to Lauren ✓
    • By mid August: defend thesis, get notes for dissertation revisions from committee
    • By mid September: do any necessary dissertation revisions, get signatures from committee, and submit
  • TVCG/VAST paper
    • By June 20: Use R to get CI intervals for correlations ✓
    • By June 26: Help Hua with response, submission for conditional acceptance ✓
  • NSF Proposal on Cognitive/Task Modeling
    • Meet weekly to stay on track for September deadline
    • By June 25:
      • Gather notes from all past proposals ✓
      • Write up independent thoughts about new proposal, then compare with David's Expedition notes
    • By mid July: rough draft of new proposal based on notes, discussions
    • By August: help prepare solid final draft
    • Submit in FastLane
      • By September 16 for MEDIUM
      • By September 24 for LARGE
      • By November 18 for SMALL
  • Other
    • Review workshops for VIS as possible project venues
    • Find housing in Boston ✓

Ryan

  • RP Imaging Studies
    • Send update for request for additional bundles in SMART data
    • Iron out details for South Africa analysis (group meeting on 6/10)
      • Update: fiber bundle length (need a couple more bundles)
      • Update: graph-based analysis w/ Laurie
    • Keep up with paper reviewing and other requests
  • Diffusion outside brain
    • Update: support image analysis w/ Trey Crisco & Ed Walsh
  • Yurt
    • Demo as needed
    • Provide support for CS137-related things
    • Help Johannes with getting up to speed for TAing
    • Update: Get some brain data in
  • Thesis work
    • Complete a rough draft of dissertation
    • Work with Dan to get bipolar imaging paper out
    • Update: Put together documentation of various analyses and tools

David

  • yurt
    • working well enough for cs137
    • working well enough for VT experiment
    • press
    • paper out about R&D, model on Cruz
    • hw and low-level software testing/reliability plan
    • application software development easier (asf?)
  • VT
    • first experiment complete, written, and out!
  • orthopedics
    • tools continuing to run well (despite upgrade)
    • renewal with Trey
    • diffusion imaging
  • longer-term funding progress
    • cognition
    • VR
    • brains
    • trey
    • STC?
  • good CS137
  • keep all advisees moving along appropriately

Wesley

  • CAVE/YURT
    • Complete or nearly complete user study with Johannes
    • Help out with Demos when needed
    • Add new applications for use in YURT
  • Fitts' Law
    • Work on paper with HCI seminar group
  • Third Person Perspective
    • Make plans for future of 3PP project or something derivative
  • Hospital
    • Discuss potential projects with Derek

Johannes

  • Cave/Yurt
    • Complete user study with Wesley
    • Design next experiment for VT project
    • Work on VR volume visualization (3D Visualizer/CaveVOX/...)
    • Get more concrete collaboration with students of Robbert Creton or Kristi Wharton
    • Help out with Demos when needed
    • Explore use of VTK in VRG3D
  • CS137
    • Set up clean development branch for CavePainting
    • Get acquainted with the sourcecode
    • Fix some bugs if possible
  • Fitts' Law
    • Work on paper with HCI seminar group
  • Thesis Project
    • Restart discussions with Derek and Kristi
    • Explore collaborations for genome folding visualizations
    • by December: Create Thesis proposal draft

Tom

Bruce

  • Funding
    • Raise funding to support Visiting Scientist position for 2016
    • Submit proposals to STAC, NSF ITEST, and ONR by end of 2015
    • Create ten-page white paper for Jan 31, 2016 to send to other funding organizations
  • Cave/Yurt
    • Axial Seamount application:
      • Implement Animation controls by Dec 31, 2015
      • Implement Grab and Manipulate interaction by Jan 30, 2016
    • Create Plan for 2016 work by Jan 30, 2016 (promote here):
      • Continuous overall contribution: Useful Temporal Interaction GUIs
      • Prioritize other COVE (http://cove.ocean.washington.edu) features integration
      • Pursue Python interpreter integration unless other Yurt methods pan out
      • Anticipate STAC/ITEST programming needs for Yurt
      • Continue to pursue possible student participation
  • CS 137
    • Continue to attend and revisit notes from UW INDE 543
    • CG&A Art on Graphics column to layout by February 15, 2016
  • Distributed Cognition
    • Create updated mind map (with bibliography) by Dec 31, 2015
    • Create d-cog metric and test plan to support VIS/VAST paper by Jan 15, 2015
    • VIS/VAST paper abstract ready by March deadline
  • Personal Development
    • Continuous: Improve research process effectiveness including a better parallel writing process
    • Continuous: Improve conciseness in e-mail and research-related writing
    • Continuous: Improve at sketching ideas

Josh

  • General
    • Become acquainted with the department and Providence in general.
    • Develop a vision for research and start finding projects to work on.
    • Improve artistic skill in order to be able to communicate ideas more effectively.
  • Yurt/Cave
    • Start to learn how to work in the Yurt effectively (likely through taking CS 137)
    • Find a project to work on in the Yurt.

Wallace

  • Finish experiment and write IEEEVR paper
  • Finish VR volume renderer
    • last changes: added another kernel for gpu pre processing, copying one PBO to another in the GPU. Simple kernel (just remove part of the dataset)
    • Issues: Interaction pass takes a long time on CPU
    • Options: add spatial structure, perform interaction on GPU
    • Other improvements: 1) reduce original RGBA 3d texture to mono -> improve memory usage 2) remove 3d texture altogether and implement filtering in the shader -> possible faster copy in one pass, 3) change to splatting 4) refactor code
  • Reimplement Volume Cracker like interaction
    • Implement on VR
    • Develop hardware
  • Finish new interaction technique
    • Finish design
    • Implement software
    • Implement technique on VR



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