Incredibly proud to see our benchmark of single-cell preprocessing methods finally published 🥳🥳🎉 We show that despite its theoretical limitations, no other transformation consistently outperforms log(y/s+1). All details at nature.com/articles/s4159… and github.com/const-ae/trans…

Course and workshop materials for single-cell omics trainers - mailchi.mp/8c80b483ee06/c…

Grand challenges in bioinformatics education and training go.nature.com/45jPokW rdcu.be/djhh8

Spatial omics data analysts sometimes use the “log1p” (y=log[1+x’]) transform incorrectly. Key fact: x’ represents normalized, not raw, umis/spot counts. And it really matters how you normalize! The figure shows three normalizations of the raw count x. 1/

**Are you thinking about joining Mastodon?!** Here are five easy steps to get you started!! Make sure to give us a follow to stay up to date with the Bioconductor community!! Our Mastodon account: buff.ly/47nLNDJ #Bioconductor #Bioconductorcommunity

🤔What #bioinformatics training would improve your research? 🔍What #training is missing in Australia? As part of the National Bioinformatics Training Co-operative we’d like you to help guide our 2024 efforts! surveymonkey.com/r/bioinf-train… #research #haveyoursay #opportunity

I made a short video of the strange things UMAP and t-SNE can do to your data. The algorithms are shown mostly working as intended, yet with some surprising consequences. #UMAP #tSNE #scRNAseq #wtf youtube.com/watch?v=gwqU9O…

Job opening for Genomics Facility Manager, running the sequencing at the Central Clinical School, Monash, located at the Alfred. careers.pageuppeople.com/513/cw/en/job/…

The most common sin of colored scatterplots is not (at least) plotting the points in random order. Plotly is worst at this! It draws one color at a time. (langevitour will randomize the order of your points, by the way. This is not an optional feature.) x.com/lpachter/statu…

Torsten Seemann working the crowd & showing how to go from assembled genomes to clinically relevant resistomes, all with open source software #ECCMID2024 #ESCMIDGlobal

Job offering at Monash University: Senior Lecturer in Bioinformatics careers.pageuppeople.com/513/cw/en/job/…

We start our second day at Global Bioinformatics Education Summit with discussions about the progress and current gaps to broaden current competency frameworks for biomedical data scientists around the globe (e.g. Africa)  #health #bioeconomy #workforce #biomedical #research #DataScientists

I have, dangerously, recently encountered a few ideas about the theory of teaching. Please, please suggest related or contradicting ideas I've missed! mastodon.online/@pfh/112500549…

In this feature by Vivien Marx🐘📬⛅️, Rafael Irizarry Jingyi Jessica Li (李婧翌) Dmitry Kobak @CellTypist and others share their views on PCA, t-SNE, UMAP and dimension reduction tools more generally. nature.com/articles/s4159…

@davisjmcc using GraphSAGE for spatial analyses, e.g. clustering based on cellular localisation. #WEHIspatial24 WEHI (Walter and Eliza Hall Institute) github.com/williamleif/Gr… and cs.stanford.edu/~jure/pubs/gra…

Julian is on his way home.

I am excited to win a CZI EOSS grant! This is the first grant I have ever won after 20+ years in science. It feels wonderful to finally be funded for my open-source contributions. With Wytamma we will deliver the next generation of my popular Snippy software! 🦘🦘🦘

The Monash Genomics and Bioinformatics Platform did a bulk RNA-Seq workshop this week. I'm really pleased how it went. We were able to incorporate a lot of practical experience, and dig into the details of how to interpret QC reports and plots. bsky.app/profile/did:pl…

Registrations for ResBaz Victoria 2024 at Monash University are now open. The program is quite varied, it's going to be an adventure! #resbaz #resbazvic2024 resbaz.github.io/resbazvic2024/…