Julien Roux
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julienroux.bsky.social
Julien Roux
@julienroux.bsky.social
Bioinformatician, Department of Biomedicine @ Uni Basel & Swiss Institute of Bioinformatics
Interested in bulk and single-cell omics, data analysis, experimental design, data visualization, R/Bioc, open science, EDI, etc 🧬 🖥️
Reposted by Julien Roux
Reposted by Julien Roux
If a function isn't implemented yet, DON'T put examples in the docs 😅 Nothing more frustrating than copying code from official documentation. Example: dds.lfcShrink Clearly mark what's ready vs what's not. Your users will thank you 🙏 inmoose.readthedocs.io/en/stable/de...
deseq2 — InMoose 0.8.0 documentation
inmoose.readthedocs.io
August 2, 2025 at 8:36 AM
Reposted by Julien Roux
The article has also a table with more in depth resources on various aspects of experimental design for more advance design needs.
August 7, 2025 at 7:44 PM
For example many people would think that you need to double the number of animals if you plan an experiment including both sexes and want to keep statistical power... Which is actually not true
September 23, 2025 at 2:55 PM
Yes, we will discuss experimental design and power issues. Even for bioinformaticians, it's important to be able to weigh in on a discussion about study design!
September 23, 2025 at 2:53 PM
One challenge is to analyze the data rigorously, for example extract significant interactions between sex and other factors of interest. Another is to then interpret the results (e.g., no significance doesn't always mean there is no effect, maybe the experiment is underpowered...)
September 22, 2025 at 6:48 AM
Correction: our course will now be taught online!
September 18, 2025 at 2:55 PM
Half-half, but we'll plan backup options for the hands-on part for people with limited R knowledge!
September 18, 2025 at 2:53 PM
Newcomers are more than welcome of course! A bit of background on the analysis of genomics and transcriptomics data would be useful however
September 10, 2025 at 3:13 PM
Reposted by Julien Roux
Our invited speakers for the parallel session on ‘Computational methods for single-cell and spatial omics’ is @stephaniehicks.bsky.social from Johns Hopkins Bloomberg School of Public Health, USA. Session is chaired by @marianna-raps.bsky.social and @julienroux.bsky.social. #bc2basel‬‬‬‬‬‬‬
September 10, 2025 at 7:31 AM