Explore projects

Cython bindings and Python interface to SWORD (Smith Waterman On Reduced Database), a method for fast database search.

Laura Bianchi - Ruprecht lab (CRG)

Gopi Shah - MIF

Nicola Gritti - MIF

Keywords: Luxendo, MuVi SPIM, python, cellpose, apoptosis, segmentation, tracking, support, external, bioimage analysis, zebrafish

EMBL Python User Group

A NumPy port of the foldseek code for encoding protein structures to 3di.

Alina Ritz- Heard Group;

Christian Tischer, Arif Khan - CBA;

Nextflow, python, nuclear cytoplasmic intensity measurements, MoBIE;

Nick Marschlich - Trivedi lab;

Nicola Gritti - MIF

Keywords: bioimage analysis, support, MIF, python, pescoids, ultrack, ome-zarr, napari, tracking

a MATLAB application (GUI) to support MINFLUX data visualization

Rust coder/decoder for Nucleotide Archive Format (NAF) files.

Kerim Anlas - Trivedi lab;

Kristina Stapornwongkul - Trivedi lab;

Nicola Gritti - MIF

Keywords: bioimage analysis, python, HCR, gastruloids, Opera PE, MIF, support, nextflow

Cyro-ET analysis of ribo-decorated mitos in glucose-depleted S. pombe cells

Server to implement image analysis jobs for online use (e.g. in feedback microscopy), including adapters to ilastik and TensorFlow.

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