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okunator/cellseg_models.pytorch: v0.1.26

Authors: Okunator;

okunator/cellseg_models.pytorch: v0.1.26

Abstract

0.1.26 — 2025-05-07 Removed Removed datamodules module Removed datasets module Refactor Refactored the whole model interface to be more user-friendly. Features Added a new wsi module, including: A SlideReader class to read patches from a WSI slide. Backends: Openslide, CUCIM Adapted the reader class from HistoPrep library. Props to Jopo666 get_sub_grids function to get subgrids from a WSI slide. Can be used to filter the patches. Based on connected components. Added a new torch_datasets module, including: WSIDatasetInfer class to run inference directly from WSIs. Adapted the class from HistoPrep library. Props to Jopo666 TrainDatasetH5 class to handle training data for the models from a h5 file. TrainDatasetFolder class to handle training data for the models from img and label folders. Added a new inference.WsiSegmenter-class to handle the segmentation of WSIs. Added a new wsi.inst_merger.InstMerger-class to handle the merging of instance masks at image boundaries. Added inst2gdf and sem2gdf functions to utils.vectorize module. These functions convert efficiently instance and semantic masks to GeoDataFrame objects. Added FileHandler.to_mat and FileHandler.to_gson save functions that take in a dictionary of model output masks (output from the Inferer-classes) and save it to a .mat or '.feather', '.geojson', '.parquet' files. Added Dependencies Added libpysal dependency Added networkx dependency Removed Dependencies Removed lightning dependency Removed albumentations dependency Chore Move FolderDatasetInferto torch_datasets module

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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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popularity
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