Skip to content

Update changelog #81

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.

Sign up for GitHub

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

Merged
ehrenfeu merged 6 commits into from
Apr 8, 2025
Merged

Update changelog #81

Changes from all commits
Commits
Show all changes
6 commits
Select commit Hold shift + click to select a range
6f8ca96
Add full path to BDV classes and trackmate methods
lguerard Apr 8, 2025
758d7e2
Add modification to `listdir_matching`
lguerard Apr 8, 2025
3634ffe
Add changes to `calculate_mean_and_stdv`
lguerard Apr 8, 2025
d55e777
Fix function path
ehrenfeu Apr 8, 2025
c99e01f
Newline
ehrenfeu Apr 8, 2025
df74f89
Modify description of the `regex` parameter
ehrenfeu Apr 8, 2025
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
15 changes: 11 additions & 4 deletions CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -63,8 +63,8 @@ detailed information, please refer to the updated API documentation.
* New `imcflibs.imagej.bdv` submodule, providing BigDataViewer related
functions:
* New classes:
* `ProcessingOptions` to store all options on how to process the dataset.
* `DefinitionOptions` to store all options on how to define the dataset.
* `imcflibs.imagej.bdv.ProcessingOptions` to store all options on how to process the dataset.
* `imcflibs.imagej.bdv.DefinitionOptions` to store all options on how to define the dataset.
* `imcflibs.imagej.bdv.check_processing_input` to sanitize and clarify the
acitt input selection.
* `imcflibs.imagej.bdv.get_processing_settings` to generate the strings needed
Expand All @@ -76,7 +76,7 @@ detailed information, please refer to the updated API documentation.
Dataset" using the "Manual Loader" option.
* `imcflibs.imagej.bdv.resave_as_h5` to resave the dataset in H5 to make it
compatible with BigDataViewer/BigStitcher.
* `imcflibs.imagej.bdv.flip_axes` tocall BigStitcher's "Flip Axes" command.
* `imcflibs.imagej.bdv.flip_axes` to call BigStitcher's "Flip Axes" command.
* `imcflibs.imagej.bdv.phase_correlation_pairwise_shifts_calculation` to
calculate pairwise shifts using Phase Correlation.
* `imcflibs.imagej.bdv.filter_pairwise_shifts` for filtering pairwise shifts
Expand All @@ -94,7 +94,7 @@ detailed information, please refer to the updated API documentation.
* New `imcflibs.imagej.trackmate` submodule to provide helper functions to
interface with Trackmate:
* Multiple functions to set up Trackmate settings with different detectors,
such as `cellpose`, `StarDist` or a `log detector`.
such as `imcflibs.imagej.trackmate.cellpose_detector`, `imcflibs.imagej.trackmate.stardist_detector` or a `imcflibs.imagej.trackmate.log_detector`.
* `imcflibs.imagej.trackmate.spot_filtering` to create settings to filter
detected spots based on optional thresholds for quality, area, circularity &
intensity.
Expand Down Expand Up @@ -159,6 +159,13 @@ detailed information, please refer to the updated API documentation.
* `imcflibs.imagej.projections.project_stack` to project along a defined axis
using the given projection type.

### Changed

* `imcflibs.pathtools.listdir_matching` now has an additional optional boolean
parameter `regex` to request the parameter `suffix` being interpreted as a
regular expression for filtering.
* `imcflibs.imagej.misc.calculate_mean_and_stdv` to allow for rounding the results.

## 1.4.0

### Added
Expand Down
Loading