U-BDS (UAB Biological Data Science core)

We're incredibly proud to release scnanoseq. It's been a rewarding journey to develop a pipeline that is modular, implements robust methods, & enhances reproducibility & accessibility of computational workflows. This is also the first nf-core pipeline from UAB! ~ Austyn & Lara

The UAB Biological Data Science core is hiring! We’re looking for a computational biologist, ideally with transcriptomics analysis experience to join our team. Please view details below & feel free to reach with questions. Apply at: uab.taleo.net/careersection/…

Congratulations to CNC faculty Lara Ianov and Farah Lubin on well-deserved Dean's Excellence Awards for Service and Mentoring!

Our preprint of nf-core/scnanoseq was released today: biorxiv.org/content/10.110… Here, we provide an overview of the pipeline design, validation results and benchmarking. We hope it serves as a valuable resource for others working with long-read single-cell transcriptomics.

Interested in single cell genomics but need help getting started? Check out the full agenda for our Single Cell Genomics Day on Friday 4/25. All talks will be live-streamed (no registration required) at satijalab.org/scgd25

We are happy to release v1.1.0 of nf-core/scnanoseq today. A key enhancement is the addition of the workflow path for Oxford Nanopore scRNA-seq with oarfish quantification.

Proud to have our work highlighted by the UAB eReporter. This would not be possible without a great team including, @lizworthey , @Bharat26oct, @nilesh_uab, @LukeSkyrunner and Austyn Trull ~Lara

Our Single Cell Genomics Day - highlighting our favorite new sc/spatial methods - starts Friday at 10AM ET! The most common question we get: is this open to anyone? Yes! Talks are free and live-streamed (no registration required) on Youtube and satijalab.org/scgd

Thank you to @lizworthey group for all the help!

Had a great time hosting a @swcarpentry workshop, covering Python, Unix and Git the past two days. We enjoyed teaching, learning and discussing all things data science with a great group of participants! Hope to see you all next time!

Want to hear about the latest updates/new techniques in single cell and spatial genomics? Check out the full agenda for our Single Cell Genomics Day on Friday, 3/29. All talks will be live-streamed (no registration required) at satijalab.org/scgd

Want to hear about the latest updates/new techniques in single cell and spatial genomics? Check out my lab's eighth annual Single Cell Genomics Day on March 29. Keynotes from @IdoAmitLab @JD_Buenrostro and Xiaowei Zhuang. Please RT/spread the word! satijalab.org/scgd

Our team is growing and thus we are #hiring. If you are interested in transcriptomics, single-cell/nuclei, and or spatial transcriptomics we encourage you to apply! Also, feel free to send us direct messages or emails with your resume and interest. Apply: uab.taleo.net/careersection/…

@RishiDevulapal1 @swcarpentry Glad you enjoyed! More to come in the near future!

Thank you to @UAB_BDS @swcarpentry for a much needed #R refresher!

Great turnout for our R, Unix and Git @swcarpentry workshop. Thanks to U-BDS and @lizworthey team members for being certified instructors and our helpers!

Had a great time presenting on our @nf_core pipeline, scnanoseq at #rsgdream2023 . Join us at the #scnanoseq channel in the nf-core Slack group for additional discussions. ~ Austyn and Lara

Did @10xGenomics just make newer versions of Cell Ranger open source? github.com/10XGenomics/ce… (cc @sjackman, @luizirber). This is a huge win for open, transparent, and reproducible science if it’s the case!

We need to focus on Reproducible Biological Data Science. This is what we strive for @UAB_BDS. Reproducibility trial: 246 biologists get different results from same data sets nature.com/articles/d4158…

Thanks @10xGenomics for the invite to discuss data analysis resources for 10X datasets. Slides can be seen here if helpful to anyone docs.google.com/presentation/d…

The UAB Heersink SOM has just relaunched its highly successful strategic neurosciences recruiting initiative! We are looking to recruit up to 20 faculty (at any rank) across UAB neuroscience departments. See posting linked here for details! uab.peopleadmin.com/postings/18636