machine learning on Marius Lange

slurm_sweep: A Lightweight Utility for Hyperparameter Sweeps on SLURM 🧪🔍

marius.lange.lab@gmail.com (Marius Lange) — Thu, 01 May 2025 12:00:00 +0000

For those of you working on SLURM clusters who struggle with running hyperparameter sweeps, I’ve released a small utility package called slurm_sweep that might save you some time and effort.

What is slurm_sweep? 🤔
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slurm_sweep is a command-line utility that bridges the gap between Weights & Biases (W&B) hyperparameter sweeps and SLURM job arrays. It solved a specific workflow problem I kept encountering: efficiently parallelizing hyperparameter sweeps on cluster infrastructure while keeping experiment tracking organized.

AI-Powered Cell Type Annotation for scRNA-seq Data with CellAnnotator

marius.lange.lab@gmail.com (Marius Lange) — Sun, 20 Apr 2025 12:00:00 +0000

Tired of manually annotating cell types in your single-cell datasets? I’m thrilled to announce CellAnnotator, a new tool that harnesses the power of large language models to automate one of the most time-consuming steps in scRNA-seq analysis. As part of the scverse ecosystem, CellAnnotator interprets marker gene patterns to generate consistent cell type annotations with less human intervention. This works well for many systems where vast prior knowledge is available, but has limitations in less well studied systems. Also, you’ll still need to validate and fine-tune your annotations. So use with care.

MSc thesis project available

marius.lange.lab@gmail.com (Marius Lange) — Tue, 20 Feb 2024 12:57:18 +0000

Are you an MSc student in Computer Science, Physics, Maths, Bioinformatics, or a related discipline with strong coding/ML skills and an interest in biological questions? This thesis project might be interesting for you!

machine learning on Marius Lange

slurm_sweep: A Lightweight Utility for Hyperparameter Sweeps on SLURM 🧪🔍

What is slurm_sweep? 🤔 #

AI-Powered Cell Type Annotation for scRNA-seq Data with CellAnnotator

MSc thesis project available

What is slurm_sweep? 🤔
#