automated analysis of immunohistochemical images
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Updated
Dec 17, 2016 - Python
automated analysis of immunohistochemical images
Custom software to allow manual counting of neurons labeled by the pesudorabies (PRV) virus. This software was written for the Texas Biomedical Device Center at UT Dallas. Images must be converted from their native format to the Microsoft "DeepZoom" format. This software relies on Node Webkit and OpenSeadragon.
Open Source python module to enable batch gold particle picking, filtering, processing & statistical modelling of TEM images produced by IGEM (immunogold electron microscopy).
Repo for Tang et al, bioRxiv 454793 (2018)
Complete Matlab pipeline for matching in vivo recorded cells post hoc in histology
Image processing desktop GUI tool to automate colocalization analysis across multiple channels on a fluorescence image
A simple toolbox of ImageJ plugins for quantifying adipocyte morphology and function in tissues and in vitro.
Morphometric analysis of neuromuscular junction microscopy images, and protein distribution and localisation analysis of immunohistochemically-labelled microscopy images.
An immunohistochemistry cell-counting (quantifying) neural network (CSRNet PyTorch) that was trained on KRT14, KRT5, and Ki67 stains (and of course DAPI).
A stainer translates HE stained slices to IHC stained slices. A solution for Breast Cancer Immunohistochemical Image Generation Challenge.
Spatially-resolved Transcriptomics via Epitope Anchoring
Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]
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