Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]

Repo for Tang et al, bioRxiv 454793 (2018)

Spatially-resolved Transcriptomics via Epitope Anchoring

A simple toolbox of ImageJ plugins for quantifying adipocyte morphology and function in tissues and in vitro.

Complete Matlab pipeline for matching in vivo recorded cells post hoc in histology

automated analysis of immunohistochemical images

A stainer translates HE stained slices to IHC stained slices. A solution for Breast Cancer Immunohistochemical Image Generation Challenge.

Open Source python module to enable batch gold particle picking, filtering, processing & statistical modelling of TEM images produced by IGEM (immunogold electron microscopy).

An immunohistochemistry cell-counting (quantifying) neural network (CSRNet PyTorch) that was trained on KRT14, KRT5, and Ki67 stains (and of course DAPI).

Morphometric analysis of neuromuscular junction microscopy images, and protein distribution and localisation analysis of immunohistochemically-labelled microscopy images.

Image processing desktop GUI tool to automate colocalization analysis across multiple channels on a fluorescence image

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.