Task list

Task list (after 17/12)

General

• Dockerize so it works in Windows (and mac)
• Test in iOS (Letícia)
• Evaluate with health professional (Paulo)
  • Overview (16/12/2020)
  • Install and how to use (to be scheduled)
• Evaluate with Medical Physicist (Bruno)
• Evaluate with MICLabers (Gustavo, Rafa, Diedre)
• Register software INOVA Unicamp

Documentation

• 'How to install' documentation
  • How to install Docker
  • How to find and download inCCsight repo
• 'How to use' documentation
  • How to call Docker image: be aware of flags and syntax
  • What are the Docker flags required and why
  • How to use inCCsight flags
  • Section: Import extra data
  • Section: External masks
• 'How to interpret data' documentation
• 'How to develop' documentation: maybe use Confluence? or git docs?
  • Program structure (Dash framework)
  • Segmentation and parcellation functions
  • . . .

Validation

• Parcel. gray zone study: Make table comparing Parcellation strategy x Mids./Axis/Max points
• Check which validation was used in each segmentation and parcellation:
  • Get public data (OASIS?)
  • Segment and parcellate, compare results

Bugs/Development

Non crucial

• Fix files name bug (segm_roqs_data .npy .nii.gz)
• Export all structured parcellation data
• Fix 'Fissure plot' proportions
• Add exit button to Quality and Subject collapse
• Add scalar selection to quality collapse
• On callback: Update tables before graphs
• Print configuration before start processing (add comment on how to interrupt program, consider OS)
• Change dict ids so 'index' is always only the subject id

Relevant

• Fix parent folder input bug
• Add port selection flag to argparse
• Put dropdown title/drops in the same Div
• Change tab name and icon
• Add button to scatter plots and scatter matrix to show trending lines
• Fix 'open_subject_collapse' callback problem with initial callback
• Fix quality container callback problem with initial callback
• Remove quality counter
• Quality collapse stuff:
  • Add 'Restore removed' button
  • Add 'Select all' button
  • Update plots when 'Remove' is pressed
• 'Export all data' stuff (use modal?):
  • Add 'Group by category' option
  • Add 'Include segmentation data' option
  • Add 'Include Std.Dev' option
• Add .gitignore file and apply it
• Add p-values to tables
• Add Loading property to graphs/tables
• Implement mask uploading
• Make 'Remove subject' button in Subject collapse work
• Quality control using statistical outliers
  • Implement outlier detection
  • Indicate quality control parameter in the Quality collapse
• Fix reactive layout
  • Fix zoom loading (make it 80%)
  • Fix banner in small screens
  • Fix subject list/counter card position in small screens
  • Set page min width
• Fix 'Thickness' function bug
• Add p-value bubble plot
• Add parcellation visualization to Subject collapse
• When some Subject[category] == NaN, make extra line with 'the rest'
• Optimize callbacks: try updating only data, not all graph

Catch/raise Errors

• 'No subjects imported'

Future?

• Interactivity: Open subject collapse upon clicking graphs
• 3D Segmentation and Visualization
• Make initial .exe file with window
• Clean code: put css stuff on css file