Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Analyze midsagittal lesion length and width #96

Draft
wants to merge 16 commits into
base: main
Choose a base branch
from

Commits on Sep 20, 2024

  1. Add script to segment the spinal cord and lesions from T2w images and…

    … compute the midsagittal lesion length and width.
    valosekj committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    426b718 View commit details
    Browse the repository at this point in the history
  2. Change logic how to save XLS files produced by sct_analyze_lesion. If…

    … we use '-ofolder' for sct_analyze_lesion, then QC report fails.
    valosekj committed Sep 20, 2024
    Configuration menu
    Copy the full SHA
    02e9321 View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    7b87b5e View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    6a06f86 View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    8d9b7b9 View commit details
    Browse the repository at this point in the history
  6. Configuration menu
    Copy the full SHA
    1f647a6 View commit details
    Browse the repository at this point in the history

Commits on Sep 21, 2024

  1. Configuration menu
    Copy the full SHA
    813caae View commit details
    Browse the repository at this point in the history

Commits on Oct 2, 2024

  1. Remove the CA model because it does not work well on lumbar data with…

    … metal artifacts
    
    See comments in the following PR for context: #96
    valosekj committed Oct 2, 2024
    Configuration menu
    Copy the full SHA
    3a88281 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    b02b11a View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    80ec10d View commit details
    Browse the repository at this point in the history
  4. Add QC for manual GT

    valosekj committed Oct 2, 2024
    Configuration menu
    Copy the full SHA
    23a1adc View commit details
    Browse the repository at this point in the history

Commits on Oct 3, 2024

  1. Run sct_analyze_lesion on GT masks before running SCIseg inference. B…

    …ecause if SCIseg predictions no lesion, it finished with a QC error and GT masks are not analyzed at all
    valosekj committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    02c33bb View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    79fd813 View commit details
    Browse the repository at this point in the history
  3. Update docstring

    valosekj committed Oct 3, 2024
    Configuration menu
    Copy the full SHA
    d296080 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    def3d1f View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    0a7aab6 View commit details
    Browse the repository at this point in the history