memoryleine

memoryleine's Stars

• imyiningliu/cellstitch

  Language:Jupyter Notebook81

• computational-cell-analytics/micro-sam

  Segment Anything for Microscopy

  Language:Jupyter Notebook33743

• SydneyBioX/BIDCell

  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data

  Language:Python355

• gioda/FeARLesS

  4D reconstruction of developmental trajectories using spherical harmonics

  Language:Python191

• AllenCell/aics-shparam

  Language:Python204

• WhoIsJack/tissue_exploder

  Create a nice exploded visualization of segmented cells in a tissue.

  Language:Python51

• AllenCell/cvapipe

  Cell Variance Analysis Pipeline

  Language:Python2

• AllenCell/cvapipe_analysis

  Analysis of data produced by cvapipe for the variance paper

  Language:Jupyter Notebook226

• glichtner/pystackreg

  A python extension for the automatic alignment of a source image or a stack (movie) to a target image/reference frame.

  Language:C++8217

• jni/zarpaint

  Paint segmentations directly to on-disk/remote zarr arrays

  Language:Python148

• pyapp-kit/magicgui

  build GUIs from type annotations

  Language:Python36249

• constantinpape/z5

  Lightweight C++ and Python interface for datasets in zarr and N5 format

  Language:C++10827

• MouseLand/cellpose

  a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

  Language:Jupyter Notebook1.3k385

• stardist/stardist

  StarDist - Object Detection with Star-convex Shapes

  Language:Python899219

• scikit-image/scikit-image

  Image processing in Python

  Language:Python6.1k2.2k

• saalfeldlab/paintera

  Language:Java10017

• MIC-DKFZ/nnUNet

  Language:Python5.7k1.7k

• kreshuklab/plant-seg

  A tool for cell instance aware segmentation in densely packed 3D volumetric images

  Language:Python9131

• AllenCellModeling/aicsimageio

  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python

  Language:Python20251

• napari/napari

  napari: a fast, interactive, multi-dimensional image viewer for python

  Language:Python2.2k420

• AllenCell/aics-ml-segmentation

  Language:Python307