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SBU-BMI
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wsinfer
🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images
https://wsinfer.readthedocs.io
Apache License 2.0
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Gracefully handle missing backends
#177
kaczmarj
closed
11 months ago
0
fixed togeojson and tosbu commands
#176
swaradgat19
closed
11 months ago
0
Incorrect command to convert model outputs to GeoJson in documentation
#175
swaradgat19
closed
11 months ago
4
add link to github repo in navbar
#174
kaczmarj
closed
11 months ago
0
[DOCS] add a link to the source code on readthedocs page
#173
kaczmarj
closed
11 months ago
0
make model output names align with QuPath
#172
kaczmarj
closed
11 months ago
1
make TILs column name lymphocytes
#171
kaczmarj
closed
11 months ago
1
[BUG] setting openslide backend without installing openslide raises unhelpful error
#170
kaczmarj
closed
11 months ago
0
remove vgg16 and inception breast models
#169
kaczmarj
closed
11 months ago
0
[PKG] add wsinfer to conda-forge channel for conda installation
#168
kaczmarj
closed
11 months ago
4
[TEST] add tests for the various mpp calculation functions we have
#167
kaczmarj
opened
11 months ago
0
ADD: calcuate mpp with openslide tiff tags
#166
kaczmarj
closed
11 months ago
0
add mpp calculation in openslide using tiff resolution tags
#165
kaczmarj
closed
11 months ago
0
[ENH] rm pyyaml dep
#164
kaczmarj
closed
11 months ago
0
[ENH] consider adding test time augmentation
#163
kaczmarj
opened
11 months ago
4
create a qupath project from the model inference results
#162
kaczmarj
closed
4 months ago
51
[DOCS] add version dropdown and code block copy button
#161
kaczmarj
closed
11 months ago
0
DOCS: update website, docstrings, and types for upcoming 0.4.0 release
#160
kaczmarj
closed
11 months ago
0
wsinfer run --help needs updating
#159
ebremer
closed
11 months ago
0
added pyproject.toml file
#158
swaradgat19
closed
11 months ago
13
Fix/setup.cfg
#157
swaradgat19
closed
12 months ago
8
Fix: use pep 604 type annotations
#156
kaczmarj
closed
12 months ago
0
Remove model-specific dockerfiles + Remove ROI functionality
#155
kaczmarj
closed
12 months ago
0
pin tifffile dependency to something greater than version 2023.*
#154
kaczmarj
closed
12 months ago
7
[REF] use custom patching implementation and use Apache 2.0 license
#153
kaczmarj
closed
12 months ago
0
remove env var prefix for CLI
#152
kaczmarj
closed
12 months ago
0
[TEST] add test for WholeSlideImagePatches class
#151
kaczmarj
opened
1 year ago
0
[TEST] add tests for the function _read_patch_coords
#150
kaczmarj
opened
1 year ago
0
[TEST] ensure that wsinfer functions without openslide or without tiffslide
#149
kaczmarj
opened
1 year ago
1
use Apache 2.0 license
#148
kaczmarj
closed
12 months ago
0
remove inference within ROIs
#147
kaczmarj
closed
12 months ago
0
add tests on macos and windows
#146
kaczmarj
closed
1 year ago
0
deprecate python 3.7
#145
kaczmarj
closed
1 year ago
0
REF: use torchscript models from huggingface hub
#144
kaczmarj
closed
1 year ago
0
TST: update tests for dev branch
#143
kaczmarj
closed
1 year ago
0
[TEST] add devices to tests
#142
kaczmarj
opened
1 year ago
0
differences in padding between large_image and openslide/tiffslide
#141
kaczmarj
closed
1 year ago
2
remove timm dependency
#140
kaczmarj
closed
1 year ago
0
ADD choice of backends (tiffslide or openslide)
#139
kaczmarj
closed
1 year ago
0
deprecate the dense patch grid creation
#138
kaczmarj
closed
1 year ago
0
handle multi-workers data loaders more gracefully
#137
kaczmarj
closed
1 year ago
1
add a choice of slide backend: openslide and tiffslide
#136
kaczmarj
closed
1 year ago
2
stride length is not scaled by slide spacing
#135
kaczmarj
closed
1 year ago
0
use pyproject.toml instead of setup.cfg
#134
kaczmarj
closed
11 months ago
7
Fix/issue 131
#133
kaczmarj
closed
1 year ago
0
Support MPS on Apple Silicon
#132
petebankhead
closed
1 year ago
2
remove large_image dependency
#131
kaczmarj
closed
1 year ago
2
fix auto-skip bug and gracefully handle failed patching
#130
kaczmarj
closed
1 year ago
0
patching empty slides throws an error
#129
kaczmarj
closed
1 year ago
0
bug in argument to patching auto skip
#128
kaczmarj
closed
1 year ago
0
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