Histolab

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**Bug Fix**
- Fix tissue mask calculation to accommodate slides with large dimensions. (`500 <https://github.com/histolab/histolab/pull/500>`_)

**Maintenance**
- Support python 3.11. (`688 <https://github.com/histolab/histolab/pull/688>`_)
- Remove support for python 3.7 and Windows (`683 <https://github.com/histolab/histolab/pull/683>`_)
- Update Openslide to 4.0.0 (`682 <https://github.com/histolab/histolab/pull/682>`_)

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**Bug Fix**

- Fix missing `relate` parameter in `OtsuThreshold`. (`415 <https://github.com/histolab/histolab/pull/415>`_)

**New Features**

- Stain Normalization with Macenko's method. (`394 <https://github.com/histolab/histolab/pull/394>`_)
- Stain normalization with Reinhard's method. (`409 <https://github.com/histolab/histolab/pull/409>`_)
- Use non-deprecated resampling constants after upgrading to Pillow 9.1.0 (`408 <https://github.com/histolab/histolab/pull/408>`_)

**Maintenance**

- Poetry migration. (`353 <https://github.com/histolab/histolab/pull/353>`_)

**Dependencies**
- Support large-image up to 1.19.1 (`496 <https://github.com/histolab/histolab/pull/496>`_) and (`#494 <https://github.com/histolab/histolab/pull/494>`_)
- Support openslide-pyrthon up to 1.2.0 (`416 <https://github.com/histolab/histolab/pull/416>`_)
- Support numpy up to 1.23.0 (`418 <https://github.com/histolab/histolab/pull/418>`_)
- Support scipy up to 1.8.1 (`405 <https://github.com/histolab/histolab/pull/405>`_)

**Documentation**

- Fix typo in documention for `Slide._thumbnail_size()`. (`495 <https://github.com/histolab/histolab/pull/495>`_)
- Add citation guidelines using citation file. (`497 <https://github.com/histolab/histolab/pull/497>`_)
- Add conda installation info. (`399 <https://github.com/histolab/histolab/pull/399>`_)
- Update Contributing guidelines after poetry migration. (`425 <https://github.com/histolab/histolab/pull/425>`_)

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**Other**
- Fix missing license info. (`391 <https://github.com/histolab/histolab/pull/391>`_)

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**Bug Fix**

- Fix `pixel_overlap` of adjacent tiles in `GridTiler`. (`372 <https://github.com/histolab/histolab/pull/372>`_)
- Fix bug of thumbnail dimensions when using large_image. (`390 <https://github.com/histolab/histolab/pull/390>`_)


**New Features**

- Tissue mask on `Tile` is sharper. (`364 <https://github.com/histolab/histolab/pull/364>`_)
- Allow custom filters in `TissueMask`. (`377 <https://github.com/histolab/histolab/pull/377>`_)
- Allow custom filters in `BiggestTissueBoxMask`. (`387 <https://github.com/histolab/histolab/pull/387>`_)

**Maintenance**

- Add Gitpod configuration file. (`379 <https://github.com/histolab/histolab/pull/379>`_)
- Try to fix dependabot. (`369 <https://github.com/histolab/histolab/pull/369>`_)

**Dependencies**

- Support scikit-image up to 0.19.2. (`365 <https://github.com/histolab/histolab/pull/365>`_ and `#384 <https://github.com/histolab/histolab/pull/384>`_)
- Support NumPy up to 1.22.3 (`366 <https://github.com/histolab/histolab/pull/366>`_, `#373 <https://github.com/histolab/histolab/pull/373>`_, `#382 <https://github.com/histolab/histolab/pull/382>`_ and `#386 <https://github.com/histolab/histolab/pull/386>`_)
- Upgrade sphinx to 4.5.0. (`367 <https://github.com/histolab/histolab/pull/367>`_, `#374 <https://github.com/histolab/histolab/pull/374>` and `#388 <https://github.com/histolab/histolab/pull/388>`)
- Pin large_image to 1.8.11. (`368 <https://github.com/histolab/histolab/pull/368>`_)
- Support scipy up to 1.8.0. (`383 <https://github.com/histolab/histolab/pull/383>`_)
- Upgrade black to fix click dependency issue. (`389 <https://github.com/histolab/histolab/pull/389>`_)

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**Bug Fix**

- None as default `level` for `Tile`, instead of 0. (`355 <https://github.com/histolab/histolab/pull/355>`_)
- Fix `Tile`'s tissue mask in case of a full tissue tile. (`360 <https://github.com/histolab/histolab/pull/360>`_)

**New Features**

- Use BICUBIC for upsampling and LANCZOS for downsampling. (`361 <https://github.com/histolab/histolab/pull/361>`_)

**Maintenance**

- Use http instead of ftp to download TGGATES slide in CI. (`352 <https://github.com/histolab/histolab/pull/352>`_)
- Add cache for WSI files. (`358 <https://github.com/histolab/histolab/pull/358>`_)

**Dependencies**

- Support scipy 1.7.3. (`356 <https://github.com/histolab/histolab/pull/356>`_)
- Only support scikit-image 0.19.0. (`362 <https://github.com/histolab/histolab/pull/362>`_)

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**Bug Fix**

- Fix `SlideSet` not passing along args to `Slide`. (`351 <https://github.com/histolab/histolab/pull/351>`_)

**New Features**

- Add RAG threshold parameters to allow return labels and masking. (`300 <https://github.com/histolab/histolab/pull/300>`_)
- Support fetching exact MPP resolutions. (`301 <https://github.com/histolab/histolab/pull/301>`_)
- Allow only keeping a subset of slides for `SlideSet`. (`303 <https://github.com/histolab/histolab/pull/303>`_)

**Documentation**

- Fix link to installation instructions. (`350 <https://github.com/histolab/histolab/pull/350>`_)