Explore projects

Microscopy Pipeline Constructor (MyPiC)

Snakemake biological workflow management tutorial

Liposome microarray (LiMA) analysis suite

Synchronises the content of a directory on the server with a galaxy library's folder. The server dir sub-structure is preserved and all files linked using symbolic links. The script can be started in daemon mode or placed under cron monitoring.

Tools to process imaging and FCS data for FCS calibrated imaging

A fork of the Bio-IT repository for materials associated with teaching image analysis. See https://stamper.embl-community.io/image-analysis-training-resources/ for rendered pages.

EMBL Bio-IT Community Documentation. https://grp-bio-it.embl-community.io/docs

Materials for the ALMF/Bio-IT Image Analysis with Python series, running Spring/Summer 2018

Metagenomics and metatranscriptomics integration

Command line tool to download raw reads from ENA

ZEN Black Visual Basic code and ImageJ Jython scripts to enable the user to manually select the point where the next image is taken.

SNV calling software

A INPHARMA data

SNV calling software

Scripts associated with the paper "Disentangling the impact of genetic and environmental factors on the proteotypes across individuals"

Code to design smFISH probes

VBA Macro for ZEN black to perform FCS measurements and acquire images for FCS calibrated imaging

A simple workflow for scRNAseq analysis