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DIAGNijmegen
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pathology-whole-slide-data
A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.
https://diagnijmegen.github.io/pathology-whole-slide-data/
Apache License 2.0
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Exemplary JSON Annotation File
#60
FraukeWilm
closed
1 month ago
2
Patch iterator compatibility with .geojson annotation files
#59
mdeleeuw1
opened
1 month ago
8
fix: cucim backend
#58
siemdejong
closed
3 months ago
1
cuCIM backend not fully supported
#57
polejowska
closed
3 months ago
1
fix: remove metaclass class argument
#56
siemdejong
closed
3 months ago
3
Cucim backend not available
#55
siemdejong
closed
3 months ago
0
Added executable main with argparse
#54
JoeySpronck
closed
5 months ago
0
add conda recipe
#53
sarthakpati
opened
6 months ago
5
fix for cases in which Classification key is not present #51
#52
Mat-Po
closed
6 months ago
1
KeyError: 'classification' in qupath annotation parser
#51
Mat-Po
closed
6 months ago
1
Overhauled convert_mask_to_xml fixing #48
#50
JoeySpronck
closed
6 months ago
0
Mask to xml/json overhaul #48
#49
JoeySpronck
closed
6 months ago
0
mask to xml/json overhaul
#48
JoeySpronck
closed
6 months ago
1
Support qptiff?
#47
yuling-luo
closed
7 months ago
4
fix #45
#46
JoeySpronck
closed
7 months ago
2
Patch label sampler fails with point annotation
#45
JoeySpronck
closed
7 months ago
3
Implement annotation offset for offset bounds in mrxs files
#44
martvanrijthoven
closed
8 months ago
1
Plot holes if any within annotations
#43
tsikup
closed
8 months ago
2
Implementation of qupath annotation parser ('.geojson')
#42
tsikup
closed
8 months ago
4
QuPath annotations (.geojson) format not readable by parser
#41
tsikup
closed
8 months ago
1
from wholeslidedata.source.configuration.config import insert_paths_into_config
#40
ZhangRan24
closed
10 months ago
2
create_batch_iterator fails when copy_path != None and number_of_batches > 0
#39
robinlomans
closed
10 months ago
2
Advantage of ConcurrentBuffer against standard pytorch data loader
#38
CharlieCheckpt
closed
11 months ago
2
Added dynamic context selection that selects 'spawn' instead of 'fork' on Windows systems
#37
JoeySpronck
closed
1 year ago
2
Add class for indexed masks
#36
daangeijs
closed
1 year ago
3
Installing package on local machine
#35
PierpaoloV
closed
1 year ago
3
I got confused between branch 'main' and '0.0.16'
#34
BestVIncent
closed
1 year ago
1
V0.1.0
#33
martvanrijthoven
closed
1 year ago
0
ASAP compatibility in imagewriter
#32
leandervaneekelen
closed
1 year ago
0
Strict sampling with `point_sampler` fails when using data with different level 0 spacings
#31
leandervaneekelen
closed
1 year ago
2
Sliding Window configuration
#30
michelbotros
closed
1 year ago
6
AsapAnnotationParser label colors from group
#29
robinlomans
closed
1 year ago
1
read images from s3 bucket
#28
rj678
closed
2 years ago
9
plot_annotations plots everything flipped
#27
michelbotros
closed
2 years ago
1
Tissue masking
#26
michelbotros
closed
2 years ago
7
Iterating over classes in WholeSlideAnnotation objects
#25
leandervaneekelen
closed
2 years ago
2
read images and annotation directly from s3 bucket
#24
rj678
closed
2 years ago
9
Sliding window with Segmentation Mask Sampling
#23
Vishwesh4
closed
2 years ago
9
Extracting randomly rotated patches from the WSI.
#22
michelbotros
closed
2 years ago
4
changing image backend to pyvips
#21
99snowleopards
closed
2 years ago
4
write docs
#20
martvanrijthoven
opened
2 years ago
1
create_batch_iterator that associates files with exact matching
#19
michelbotros
closed
2 years ago
3
Artifacts from batch iterator
#18
sumeetgadagkar
closed
2 years ago
4
Added scale multiplication to plot_annotations when using base_coordinates
#17
robinlomans
closed
2 years ago
0
use github url as package website
#16
kaczmarj
closed
2 years ago
0
Feature/inst norm albu
#15
thijsgelton
closed
2 years ago
0
RegistrantNotRegisteredError in Tiger-Hooknet Example
#14
AmartyaCSB
closed
2 years ago
2
Feature/inst norm albu
#13
thijsgelton
closed
2 years ago
0
Refactor/parsing
#12
martvanrijthoven
closed
2 years ago
0
enhance shape and spacing error messages
#11
kaczmarj
closed
2 years ago
1
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