jgu13

her2st

Her2 Breast Cancer Project

istar

awesome-chatgpt-prompts

This repo includes ChatGPT prompt curation to use ChatGPT better.

DGVAE_pytorch

DGVAE

vgae_pytorch

This repository implements variational graph auto encoder by Thomas Kipf.

stellar

CELESTA

Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information for multiplexed in situ imaging data. No training dataset with cell type labels is required.

ilastik

ilastik-shell, applets, and workflows to string them together.

scDeepSort

Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network

FlowSOM

Using self-organizing maps for visualization and interpretation of cytometry data

ACDC_tutorial

CytoPy

A data-centric flow/mass cytometry automated analysis framework

deepcytof

PhenoGraph

Subpopulation detection in high-dimensional single-cell data

acdc

Bug fixed version of acdc

schapiro-2017

Pipeline to process tiff files + masks from Schapiro 2017 https://pubmed.ncbi.nlm.nih.gov/28783155/

Awesome-Image-Quality-Assessment

A comprehensive collection of IQA papers

mantis-viewer

Electron-based multiplexed imaging viewer

keras-rcnn

Keras package for region-based convolutional neural networks (RCNNs)

fairseq

Facebook AI Research Sequence-to-Sequence Toolkit written in Python.

Cell-Segmentation

Cell-Phenotyping-Brain

Cell-Phenotyping-Lung

IMC-Lung

kiosk-imageJ-plugin

An ImageJ Plugin for interacting with the DeepCell Kiosk

cytofBench

Benchmarking comparison for current CyTOF clustering tools

PhenoGraph

Subpopulation detection in high-dimensional single-cell data

detectron2

Detectron2 is a platform for object detection, segmentation and other visual recognition tasks.

ultralytics

Ultralytics YOLO11 🚀