Napari-clusters-plotter

New Features
* Progress bar is now displayed in napari status bar
* Implemented multithreading, which prevents not responding napari viewer

What's Changed
* [pre-commit.ci] pre-commit autoupdate by pre-commit-ci in https://github.com/BiAPoL/napari-clusters-plotter/pull/75
* More declarative Conda activation by lucasSaavedra123 in https://github.com/BiAPoL/napari-clusters-plotter/pull/74
* Removing the setting of the backend by Cryaaa in https://github.com/BiAPoL/napari-clusters-plotter/pull/78
* Implement progress bar, multithreading by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/44

Backwards compatibility breaking changes:
* Implementing progress bar, multithreading in https://github.com/BiAPoL/napari-clusters-plotter/pull/44 caused the change of return type of clustering and dimensionality reduction functions. Now a tuple is returned, where the first item is algorithm name and the second is the result.

New Contributors
* lucasSaavedra123 made their first contribution in https://github.com/BiAPoL/napari-clusters-plotter/pull/74

**Full Changelog**: https://github.com/BiAPoL/napari-clusters-plotter/compare/0.3.0...0.4.0

New Features

- New dimensionality reduction algorithm: Principal Component Analysis (PCA) by Cryaaa in https://github.com/BiAPoL/napari-clusters-plotter/pull/46
- New clustering algorithms: Gaussian Mixture Model (GMM), Mean Shift (MS), Agglomerative clustering (AC) by haesleinhuepf in https://github.com/BiAPoL/napari-clusters-plotter/pull/66
- Multiple selections in different colours in the scatter plot by haesleinhuepf in https://github.com/BiAPoL/napari-clusters-plotter/pull/67
- Possibility to add custom results column name by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/73

Bug Fixes
- Fix displayed region properties in napari status bar haesleinhuepf in https://github.com/BiAPoL/napari-clusters-plotter/pull/59
- Add dask arrays support by zoccoler in https://github.com/BiAPoL/napari-clusters-plotter/pull/50
- Fix NaNs in measurements (avoid errors during dimensionality reduction and clustering) by jo-mueller in https://github.com/BiAPoL/napari-clusters-plotter/pull/70
- Fix unauthenticated git protocol error by jo-mueller in https://github.com/BiAPoL/napari-clusters-plotter/pull/64

Improvements
- Update troubleshooting steps by jo-mueller in https://github.com/BiAPoL/napari-clusters-plotter/pull/41
- Add tests by jo-mueller in https://github.com/BiAPoL/napari-clusters-plotter/pull/40
- Add Codecov by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/53
- Add DOI badge by haesleinhuepf in https://github.com/BiAPoL/napari-clusters-plotter/pull/42
- Add pre-commit by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/49
- Add napari hub categories by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/52

**Full Changelog**: https://github.com/BiAPoL/napari-clusters-plotter/compare/0.2.2...0.3.0

Bug fix:

- Fix the problem that made the plotting not work with napari=0.4.13

Bugfix:

- Icons folder was not distributed.

New features
* HDBSCAN clustering algorithm is now available to choose from in the Clustering widget by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/29
* Standardization option in Dimensionality Reduction and Clustering widgets by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/29. In the previous release, standardization was performed under the hood only before dimensionality reduction without an option to disable it.
* Hover question marks for a pop-up text for getting more information about some parameters by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/33
* Two new buttons: 'Restore Defaults' and 'Update Selection Boxes' by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/25
* New color toolbar (white) for better visibility in dark napari mode and tooltips for extra information when hovering over toolbar's buttons by zoccoler in https://github.com/BiAPoL/napari-clusters-plotter/pull/34

Enhancement
Under the hood changes to improve the code, make maintenance easier and make visualization of clusters faster.
* Simplify the code using [magicgui ](https://github.com/napari/magicgui) by lazigu in https://github.com/BiAPoL/napari-clusters-plotter/pull/25
* Speeding up visualization of clusters by Cryaaa in https://github.com/BiAPoL/napari-clusters-plotter/pull/30
* Updated documentation: updated images of the usage section to reflect UI changes, troubleshooting installation section

Bug fixes
* Fixing loading csv bug by Cryaaa in https://github.com/BiAPoL/napari-clusters-plotter/pull/32

Special Thanks
Czaki for all the feedback and suggestions.

**New feature:**
- Added t-SNE (t-distributed stochastic neighbour embedding) dimensionality reduction option

**Bug fix**
- Fixed a bug related to the automatically added 'labels' column when region properties are uploaded from a file

Thanks to Cryaaa!