Our benchmark + guidelines for atlas-level differential gene expression of single cells is online:

academic.oup.com/bib/article/...

Bottom line: Use pseudobulk + DESeq2 in simple and pseudobulk + DREAM in more complex settings.

Collab w/ @leonhafner.bsky.social @itisalist.bsky.social

One of my favorite features: automated watermarking of all plots in a quarto report. Nobody gonna publish my plots anymore before I think they are ready.

There's a certain price risk, though. In the energy crisis 2021-2022 prices increased significantly. However prices in 2023 were down to normal, while many fixed price tariffs increased their rates.

Dynamic electricity tariffs are an incentive to use energy when it's abundant and emits little CO2.

But are they also cheaper?

✅ For 2024, we would have saved 10-13% compared to our current fixed price tariff. Without any optimization.

Full post (in German): grst.github.io/dynamischer-...

Formulaic is the go-to way to specify design formulas in Python, e.g. ~treatment + timepoint.

To compare sth, one needs to specify a contrast, e.g "on treatment vs baseline".

To make this easier, we developed "formulaic-contrasts":
formulaic-contrasts.readthedocs.io/en/latest/