New preprint describing our tool scBubbletree:
https://www.biorxiv.org/content/10.1101/2023.03.09.531263v1 .
scBubbletree computes visual, quantitative summaries of single cell RNA-seq data sets (notorious for their complexity). We show that the tool outperforms the state-of-the-art by horse lengths. scBubbletree is freely available as open source R package from http://bioconductor.org/packages/scBubbletree/ .

#scRNAseq #rstats #bioconductor

Help wanted #rstats #bioconductor

This View file from bioconductor is machine readable.

nrow(as.data.frame(read.dcf(url("https://bioconductor.org/packages/release/bioc/VIEWS"))))

However, it contains only metadata of "Software" packages.

Do you know any file that contains also metadata of "AnnotationData", "ExperimentData" and "Workflow" packages?

Many thanks to Dr. Alice Yue and all attendees for making the first edition of the Flow Cytometry analysis in R/Bioconductor a great success!

Best of luck with the analysis of your data!

#Rstats #Bioconductor #flowcytometry

Interested in Gene Set Enrichment in R? Have a look at our new course with Dr. Zuguang Gu

If interested, please check it out: https://physalia-courses.org/courses-workshops/gse-in-r/

#Rstats #Genomics #bioconductor #DataScience #Bioinformatics #datavisualization #GSEA #CancerGenomics

There is one place left on the RNAseq in non-model organisms course.

Register now ➡️ https://physalia-courses.org/courses-workshops/course11/

#Bioinformatics #rStats #RNAseq #bioconductor #genomics #evolutionarybiology #ecoevo

There is one place left on the RNAseq in non-model organisms course.

Register now ➡️ https://physalia-courses.org/courses-workshops/course11/

#Bioinformatics #rStats #RNAseq #bioconductor #genomics #evolutionarybiology #ecoevo

🥁Registration is now open for the 4th edition of the course "R/Bioconductor for Mass Spectrometry and Proteomics"

👤 Instructor: @lgatto

🔗https://physalia-courses.org/courses-workshops/course58/

#rstats #Bioconductor
#dataScience #Proteomics #MassSpectrometry #data #dataanalysis #science

It has been a real pleasure to spend the last 2 weeks with this group of attendees, learning about #RNAseq #dataanalysis using #rstats and #Bioconductor

Special thanks to our instructor Dr. Ludwig Geistlinger (Harvard Medical School)!

👏What a fantastic week we've had at our Metabolomics in R/Bioconductor course.

🙏Many thanks to our instructor Dr. Pietro Franceschi
and all attendees for joining us this week.

📨Want to join us for the next edition? https://physalia-courses.org/courses-workshops/
#rstats #Bioconductor
#Metabolomics #DataScience

Notably, the most obvious solution to this problem seemed to be the SRAdb Bioconductor package, but this doesn't seem to work for any (remotely) recently uploaded accession IDs in my hands #SRAdb #Bioconductor #Rstats

Thanks to our brilliant instructor Dr Jacques Serizay and all attendees for making the 1st edition of the course "Developing R/Bioconductor packages for genomics" a great success!

#rstats #Bioinformatics #Genomics #DataScience #Bioconductor

Quick introduction: I’m an aspiring #physicianscientist currently applying to #MSTP #mdphd programs. My research interests are in #metabolism #diabetes #lipidmetabolism #transcriptionfactors and #erstress. In addition to basic science, I love using #rstats #bioconductor and high-throughout sequencing, screens, etc. and I’m currently learning #unix. Personal interests include #weightlifting and #fishing.

If you are misled by UMAP visualizations of single cell RNA-seq data (yes, you are, you just don't know yet), try Simo's new R-package scBubbletree https://doi.org/doi:10.18129/B9.bioc.scBubbletree . A full paper will follow. #scRNAseq #bioconductor #R #bioinformatics

Registration for BioC2022 is still open: https://bioc2022.bioconductor.org/

#BioConductor

Happy to announce that the paper on our #bioconductor #rstats packages for #metabolomics annotation is now published!!!

https://doi.org/10.3390/metabo12020173

@rstats@gup.pe

#bioconductor Deux heures de prise de tête pour un message d'avertissement difficile à reproduire. https://support.bioconductor.org/p/95452/ Two hours spend banding my head on the walls for a warning message that I had difficulties to reproduce.

Headaches with the minor update of R (3.3.3) which broke packages providing S4 classes using the c() function and installed with previous versions. In #Debian we had to rebuild a bunch of packages, especially #Bioconductor ones. I hope that the problem is almost solved. At the moment I still need to double-check r-bioc-shortread. Let me know if you find other breakages in Stretch !