“Can we predict T cell specificity with digital biology and machine learning?” was the title of a recent publication in Nature Reviews Immunology by Hudson et al.. The author’s conclusion was: It’s tough. Why bother in the first place? Because T cells target all sorts of diseases, their receptor sequences...
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Nextflow on AWS Batch
After a recent job change, I’m back at science! Yay!
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Integrating Azure Batch support in Snakemake
In my two previous posts I showed how to run Snakemake on Azure Kubernetes Service (AKS) without a shared filesystem. While there is nothing wrong with this setup, there is another Azure service that’s actually meant for this type of batch computing scenario: Azure Batch, a cloud based job scheduling...
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Using Azure Container Registries with Snakemake and AKS
In a previous post I showed how to run Snakemake on an auto-scaling Kubernetes cluster without shared filesystem on Azure. There I used a public Dockerhub repo for the Snakemake container. Since we were running Kubernetes on Azure it makes sense to use Azure Container registries (ACR; which supports Singularity...
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Running Snakemake on an auto-scaling Azure Kubernetes cluster without shared filesystem
Edit (Aug 2020): This has made it into the official Snakemake documentation. Refer to the official AKS executor tutorial
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