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Notes and SLURM templates for using AlphaFold and related tools on the EMBL HD cluser

Source code related to the publication "Visualization of loop extrusion by DNA nanoscale tracing in single human cells" by Beckwith, Ødegård-Fougner et.al. DOI: https://doi.org/10.1101/2021.04.12.439407

Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.

R package to read, register and compare point sets from single molecule localization microscopy.

SVLT = Serving Vision to Living Things. A service for on-demand computer vision, targeted at image feedback in microscopy and other life sciences applications.

Demo of a Poissonian Cellular-Potts model

Rendered at https://grp-bio-it.embl-community.io/template-quarto

Development of Automated Protocols on Zeiss microscopes controlled by ZenBlue

Mahak Bhushan, Francesca Coraggio - Rapti Lab, EMBL Heidelberg; Christian Tischer - Centre for Bioimage Analysis, EMBL Heidelberg; ImageJ Macro, Glia volume measurement

Cuylen Lab

Daniel Heid - Zaugg Group;

Christian Tischer - CBA;

Wound healing analysis, High throughput microscopy

Kenta Imai, Maho Hamasaki - ALMF visitor;

HTM, Screen, Autophagy, CellProfiler

Alina Ritz- Heard Group;

Christian Tischer, Arif Khan - CBA;

Nextflow, python, nuclear cytoplasmic intensity measurements, MoBIE;