cell-analysis

A Repo for Nusa's Project from REGE-VUB

A script to plot traces of muscle contractions from video recordings. This is part of my ongoing PhD work.

PhenoPixel: A web-based bioimage analysis platform for bacterial single-cell microscopy analytics.

Data-management/glue layer for a cell-painting feature-extraction pipeline

Deep Learning based segmentation and tracking to understand the dynamics and morphology of cells over time.

Lightweight pipeline for preprocessing, segmentation, tracking, and analysis of fluorescence microscopy images.

Automated high-content screening pipeline for phenotypic drug discovery

High Intensity Peak Analysis for detecting High Intensity Cells

manipulation and analysis of phase microscopy data

FLIM-focused framework for multimodal single-cell imaging: extract features from FLIM and QPI data, then analyze any tabular dataset interactively.

A small tool in python to read the bright-field image data and the phase image data recovered from a Digital holographic microscope (DHM) and segment the nuclei to calculate physical parameters like roughness and volume.

Shape-Out has been superseded by Shape-Out 2.

PhenoPixel: A web-based bioimage analysis platform for bacterial single-cell microscopy analytics.

Integrated Cell project implemented in pytorch