saeyslab Goto Github PK
Name: Saeys Lab
Type: Organization
Bio: Data Mining and Modelling for Biomedicine, a VIB - UGent research unit
Twitter: saeyslab
Location: Ghent - Belgium
Name: Saeys Lab
Type: Organization
Bio: Data Mining and Modelling for Biomedicine, a VIB - UGent research unit
Twitter: saeyslab
Location: Ghent - Belgium
BioSegment is a software stack to enable segmentation of microscopy data using machine learning models.
Overview of the scripts used to analyse the brainimmuneatlas data
cifconvert is a package built on the python-bioformats package that saves images and masks from the proprietary Amnis CIF-file format to an HDF5 file.
Code used to generate results for paper "A computational pipeline for the classification of CVID". This paper is submitted to Frontiers Immunology
Workshop computational cytometry
Estimate Stain Index for single stained cytometry files.
R scripts to analyse the CYTOF data generated by the team of Frederik De Smet
R library to normalize cytometry data
Scripts to replicate the figures reported in the CytofNorm publication.
R code to demonstrate the functionalities of CytoNorm2.0
Basic and Advanced usage of High-Performance Computing in Bioinformatics
A framework around Tensorflow-Keras that makes it easy to train and evaluate any deep learning architecture on imaging flow cytometry data.
Script to extract fcs files and gating information from infinicyt .CYT files
Submission to the FlowCAP IV challenge: Survival time prediction based on flow cytometry data
Using self-organizing maps for visualization and interpretation of cytometry data
R code to demonstrate the FlowSOM analysis pipeline.
The complete FlowSOM package known from R, now available in Python!
Example usage of the FlowSOM package
Encoder with group loss for global structure preservation
Hydra HPC example
Scripts for the conversion of data collected on Luminex imaging flow devices to a zarr file.
R code to replicate the tSNE and FlowSOM figures
Code used to generate the results described in Liechti et al.
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