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Installation
Tutorials
Welcome to the world of Whole slide images!
Preprocessing a WSI: From raw image to analysis-ready data
Feature extraction and spatial analysis
Integration with slide level-labels
Integration with transcriptomics
Cell segmentation
WSI Visualization in LazySlide
Zero-shot learning
API Reference
Preprocessing:
pp
lazyslide.pp.find_tissues
lazyslide.pp.score_tissues
lazyslide.pp.tile_tissues
lazyslide.pp.score_tiles
lazyslide.pp.tile_graph
Tools:
tl
lazyslide.tl.feature_extraction
lazyslide.tl.feature_aggregation
lazyslide.tl.spatial_features
lazyslide.tl.tissue_props
lazyslide.tl.tile_prediction
lazyslide.tl.spatial_domain
lazyslide.tl.tile_shaper
lazyslide.tl.text_embedding
lazyslide.tl.text_image_similarity
lazyslide.tl.RNALinker
lazyslide.tl.zero_shot_score
lazyslide.tl.slide_caption
Plotting:
pl
lazyslide.pl.tissue
lazyslide.pl.tiles
lazyslide.pl.annotations
lazyslide.pl.WSIViewer
Segmentation
seg
lazyslide.seg.cells
lazyslide.seg.cell_types
lazyslide.seg.semantic
lazyslide.seg.tissue
lazyslide.seg.artifact
IO
io
lazyslide.io.load_annotations
lazyslide.io.export_annotations
Models
lazyslide.models.list_models
lazyslide.models.vision.UNI
lazyslide.models.vision.UNI2
lazyslide.models.vision.GigaPath
lazyslide.models.vision.PLIPVision
lazyslide.models.vision.CONCHVision
lazyslide.models.vision.Virchow
lazyslide.models.vision.Virchow2
lazyslide.models.vision.Phikon
lazyslide.models.vision.PhikonV2
lazyslide.models.vision.HOptimus0
lazyslide.models.vision.HOptimus1
lazyslide.models.vision.H0Mini
lazyslide.models.vision.HibouB
lazyslide.models.vision.HibouL
lazyslide.models.multimodal.PLIP
lazyslide.models.multimodal.CONCH
lazyslide.models.multimodal.Titan
lazyslide.models.multimodal.Prism
lazyslide.models.multimodal.OmiCLIP
lazyslide.models.segmentation.Instanseg
lazyslide.models.segmentation.NuLite
lazyslide.models.segmentation.GrandQCTissue
lazyslide.models.segmentation.GrandQCArtifact
lazyslide.models.segmentation.SMPBase
lazyslide.models.base.ModelBase
lazyslide.models.base.ImageModel
lazyslide.models.base.ImageTextModel
lazyslide.models.base.SegmentationModel
lazyslide.models.base.SlideEncoderModel
lazyslide.models.base.TimmModel
Computer vision utilities
lazyslide.cv.scorer.FocusLite
lazyslide.cv.scorer.Contrast
lazyslide.cv.scorer.SplitRGB
lazyslide.cv.scorer.Redness
lazyslide.cv.scorer.Brightness
lazyslide.cv.scorer.ScorerBase
lazyslide.cv.Mask
lazyslide.cv.BinaryMask
lazyslide.cv.MultilabelMask
lazyslide.cv.MulticlassMask
lazyslide.cv.InstanceMap
lazyslide.cv.ProbabilityMap
lazyslide.cv.merge_polygons
lazyslide.cv.preserve_largest_polygon
Contributing
Contributors
.rst
.pdf
lazyslide.models.base.ModelBase
Contents
ModelBase
lazyslide.models.base.ModelBase
#
class
ModelBase
#
Bases:
ABC
Contents
ModelBase
