Image-based analysis of cardiac fibroblast datasets to uncover proprietary drug impact on reversing fibrosis
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Updated
May 23, 2024 - Jupyter Notebook
Image-based analysis of cardiac fibroblast datasets to uncover proprietary drug impact on reversing fibrosis
slideToolkit: a free toolset for analyzing wholeslide high-resolution digital histological images.
Python package for processing image-based profiling data
Run encapsulated docker containers with CellProfiler in the Amazon Web Services infrastructure.
A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.
Single cell analysis of the JUMP Cell Painting consortium pilot data (cpg0000)
Transform CellProfiler and DeepProfiler data for processing image-based profiling readouts with Pycytominer and other Cytomining tools.
Image-based Profiling Handbook
Open-source software for exploring and analyzing large, high-dimensional image-derived data.
slideNormalize: normalisation of histological high-resolution images.
A pixel classification based multiplexed image segmentation pipeline
A curated list of awesome cytodata resources
Scripts used for the "Glycophorin C in carotid atherosclerotic plaque reflects intraplaque hemorrhage and pre-procedural neurological symptoms" paper.
R scripts to clean/analyse CellProfiler output, forked from
OrganelleProfiler and OrganelleContentProfiler pipelines for CellProfiler as described in Laan et al (PLoS ONE, 2023)
High-dimensional phenotyping to define the genetic basis of cellular morphology
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