Our (Nikoleta Glynatsi and myself) Research Software Development workshop starts tomorrow. All code and presentations are available here: https://gitlab.gwdg.de/glynatsi/rsd-workshop.

I just finished my lecture at Heinrich-Heine-Schule Büdelsdorf on “Evolution und Künstliche Intelligenz.” (“Evolution and Artificial Intelligence”). Slides are here.

Edit May 21 2021 I made a short video presentation on the subject, as a “flash” talk for the OME Community Meeting 2021: https://youtu.be/inGQXtbzoZI . Summary This tutorial gives a step-by-step instruction on annotating containers (Projects, Datasets, Plates, or Screens) and individual or multiple images.

Introduction Globus Online is a web service to transfer data over the internet. It is particularly suited for large files in the GB to TB range. The largest dataset transferred with globus so far is a 2.9 PB file from Argonne National Lab link. I just completed a workflow where I used globus to transfer a ~500 GB dataset from the DRACO HPC cluster at the MPCDF to a shared samba drive at MPI Evolutionary Biology.

The Max-Planck Computing and Data Facility enables users to run computationally demanding graphical front ends (GUIs) on their high performance computing resources. This means you can run the executable on the HPC cluster while interacting with the GUI on your desktop or laptop PC. To use this service, you will need access to the MPCDF cluster ‘Draco’. Here is a web form to request access.

While writing this blog, I needed to change the theme. Here’s the steps to follow: 1) Pick a theme from https://themes.gohugo.io 2) Get the URL for the themes' github repository. E.g for the theme of this blog ("tale") the URL is https://github.com/EmielH/tale-hugo.git . 3) Add the theme as a git submodule to your page's repository.

If you have not seen it, check out the all new website of the Microbial Population Biology Department. It provides in-depth information about all ongoing research projects in the Department and its affiliated Research Groups. There’s also a section on computational pipelines and the pseudomonas fluorescens SBW25 knowledge base (prototype reachable from within the MPI Evolbio subnet here).

Joining forces with Loukas Theodosiou and Da Zhou (Visitig Scholar at Evolutionary Theory Department),  we set out to implement a stochastical simulation code based on the Gillespie algorithm to model the growth of barcoded bacterial communities.

My interest is the application of high performance and high throughput computing in data processing, data analysis, and numerical simulations of dynamical processes. I have a background in Theoretical Physics with a Ph.D. from Rostock University (2008), where I studied analytical models and numerical simulations of extremely dense and hot matter.