Pinned Repositories
cam_acq
Python project to control microscope through client-server program.
FucciSingleCellSeqPipeline
Cell cycle analysis of single-cell proteomic and transcriptomic data for the FUCCI cell model -- RNA-Seq analysis pipeline
HPA-Cell-Segmentation
HPA-competition
Human Protein Atlas image classification competition
HPA-competition-solutions
Team original solutions for the Human Protein Atlas image classification competition
Loc-CAT
The Cellular Annotation Tool
pipex
A pipeline to transform images into valuable analysis items
pytorch_integrated_cell
Integrated Cell project implemented in pytorch
SingleCellProteogenomics
Cell cycle analysis of single-cell proteomic and transcriptomic data for the FUCCI cell model
subcell-embed
Codebase for training the SubCell models
CellProfiling's Repositories
CellProfiling/pytorch_integrated_cell
Integrated Cell project implemented in pytorch
CellProfiling/FeatureExtraction
This code extracts SLF quantitative image features for fluorescent microscopy images. This code was a collaboration between Murphy lab (murphylab.web.cmu.edu) and the HPA Cell Atlas (proteinatlas.org/humancell). Explanations for SLF features can be found here (murphylab.web.cmu.edu/services/SLF/features.html).
CellProfiling/cyto-challenge
CellProfiling/HPA-Special-Prize
code needed to run the HPA special prize
CellProfiling/Image_processing_and_segmentation
CellProfiling/ProjectDiscovery
Data and scripts for analysis of Project Discovery
CellProfiling/auto_acq
This project means to automate confocal image acquisition.
CellProfiling/auto-sample-prep
Collect code for automatic sample preparation.
CellProfiling/bioloaders
A repository of dataset objects for common datatypes in bio sciences.
CellProfiling/CellProfiling.github.io
CellProfiling/covid-models
CellProfiling/docker_pytorch_extended
Uses the pytorch docker image to build an extended image with jupyter notebook, and some other python utils
CellProfiling/HPA-model-bestfitting
CellProfiling/HPA-model-template
This is a project template for submitting models to the HPA Model Zoo
CellProfiling/imjoy-interactive-segmentation
CellProfiling/pudae-kaggle-hpa
Code for 3rd place solution in Kaggle Human Protein Atlas Image Classification Challenge.
CellProfiling/Pyomexml
This is an editor/reader for ome-tiff xml data in python
CellProfiling/test-challenge
Scripts to set up test challenge.
CellProfiling/Visualization_best_practices
This is a collaborative repository founded at VIZBI 2018 for exemplifying visualization methods and policies which represent best practices for visualizing and interpreting different types of data.