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Merged
merged 21 commits into from
Nov 9, 2021
Merged

NEW: Add stainaugment feature for stain augmentation #181

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5183a45
[skip travis] NEW: Add stainaugment feature for stain augmentation
mostafajahanifar Oct 28, 2021
bfb3975
[skip travis] MAINT: add licence and docstring placeholders
mostafajahanifar Oct 28, 2021
0adee96
[skip travis] MAINT: correct StainAugmentation misspelt
mostafajahanifar Oct 28, 2021
7ee8424
[skip travis] UPD: corrected tools init
mostafajahanifar Nov 2, 2021
bbe0888
ENH: add albumentations and multiprocessing compatibility to stainaug
mostafajahanifar Nov 3, 2021
bfe1041
ENH: enhance the class to support faster stand-alone augmentation
mostafajahanifar Nov 3, 2021
1aa1bad
[skip travis] ENH: improve class structure and functions
mostafajahanifar Nov 3, 2021
150abd2
[skip travis] DOC: add docstrings
mostafajahanifar Nov 3, 2021
ae12b22
[skip travis] MAINT: correct for deepsource errors
mostafajahanifar Nov 3, 2021
01881fa
[skip travis] MAINT: correct for deepsource errors
mostafajahanifar Nov 3, 2021
7f55783
TST: add tests for StainAugmentation
mostafajahanifar Nov 3, 2021
a289083
TST: update the StainAugmentation tests
mostafajahanifar Nov 4, 2021
b029e1d
TST: improve coverage
mostafajahanifar Nov 4, 2021
e5506d8
Merge branch 'develop' of https://github.com/TIA-Lab/tiatoolbox into …
mostafajahanifar Nov 4, 2021
57ca5c7
NULL: empty commit
mostafajahanifar Nov 5, 2021
6ddac4d
TST: improve coverage
mostafajahanifar Nov 5, 2021
9f2dd5a
Merge branch 'develop' of https://github.com/TIA-Lab/tiatoolbox into …
mostafajahanifar Nov 8, 2021
ff0e65c
MAINT: apply reviewers comments
mostafajahanifar Nov 8, 2021
3727594
UPD: improve randomness in augmentation
mostafajahanifar Nov 9, 2021
83295a9
DOC: add stainaugment to the usage.rst
mostafajahanifar Nov 9, 2021
26dcf3f
[skip travis] MAINT: correct spacing for docstrings
mostafajahanifar Nov 9, 2021
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11 changes: 8 additions & 3 deletions docs/usage.rst
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Expand Up @@ -43,7 +43,6 @@ obtaining information about a slide or generating tiles.
.. automodule:: tiatoolbox.wsicore.save_tiles
:members: save_tiles


^^^^^^^^^^^^^^^^^^^
Stain Normalisation
^^^^^^^^^^^^^^^^^^^
Expand All @@ -66,22 +65,28 @@ Stain Normalisation
.. autoclass:: ReinhardNormaliser
:show-inheritance:


^^^^^^^^^^^^^^^
Tissue Masking
^^^^^^^^^^^^^^^

.. automodule:: tiatoolbox.tools.tissuemask
:members:


^^^^^^^^^^^^^^^^^^
Stain Extraction
^^^^^^^^^^^^^^^^^^

.. automodule:: tiatoolbox.tools.stainextract
:members:

^^^^^^^^^^^^^^^^^^
Stain Augmentation
^^^^^^^^^^^^^^^^^^

.. automodule:: tiatoolbox.tools.stainaugment
:members:


^^^^^^^^^^^^^^^^^^
Patch Extraction
^^^^^^^^^^^^^^^^^^
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