Hirak Sarkar @[email protected]
@hrksrkrLudwig Scholar at Ludwig Princeton Branch and CINJ | Ph.D. with @nomad421 at UMD CBCB, Computational Biology, Machine Learning. @[email protected]
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Is there a way to stitch fov-s from multiple anndata objects (or within one anndata object) in scanpy/squidpy/scverse world, like one would do in Giotto ? #spatial #scverse
We've updated our #bioRxiv preprint investigating the potential impact of #geneexpression normalization methods with different gene panels in analysis + interpretation of #singlecell imaging-based targeted #spatialtranscriptomics data. Check it out: biorxiv.org/content/10.110… 🧵1/n
Alma is an amazing researcher, I bet it would be an amazing summer for any upcoming bioinformatics researcher who gets this opportunity.
Supercharge your summer by joining our team at Genentech as an intern! I'll be mentoring one intern focusing on representation learning for omics data. Sounds interesting? Read more and apply here 👉 roche.wd3.myworkdayjobs.com/ROG-A2O-GENE/j…
Supercharge your summer by joining our team at Genentech as an intern! I'll be mentoring one intern focusing on representation learning for omics data. Sounds interesting? Read more and apply here 👉 roche.wd3.myworkdayjobs.com/ROG-A2O-GENE/j…
Slide-tags unifies the single cell + spatial genomics worlds. It solves three key problems with existing spatial methods: 1) Cell segmentation (the biggest problem) 2) robustness and scalability (well-powered case-control studies now possible) 3) Multiomics (ATAC, RNA, etc)
A new method called Slide-tags lets scientists capture both genetic and location information of individual cells using standard single-cell workflows in the lab. The technology builds upon Slide-seq, both developed by the labs of @insitubiology & @macosko broad.io/slide-tags
We are looking for an intern with a strong ML and interpretability background to join me, @juliusadml, and the amazing @PrescientDesign @genentech team next summer as an intern in our NYC office! We will be adding interpretability to LLMs with applications in drug discovery. 🧵1/
Yifei was an amazing scientist and a kind soul. During our brief time together, he passionately taught me a lot about genomic research and machine learning. Please consider donating for his daughter's education.
Yifei HUANG (@huangyifeicmb), our dear colleague, Asst Prof @PennStateBio, passed away from cancer in October at the age of 40. We are collecting donations for his daughter's education. All donations are tax-deductible. @PSUresearch Please RT. gofund.me/ef82effe
We're looking for postdoctoral fellows in AI! We offer: excellent cohort of young researchers, dedicated GPU cluster with 300H100s, $100K salary (+$10k research funds), stunning campus. 1 hour from NYC and Philly. Renewable, i.e., possible to stay multiple years. Join us!
Excited to announce the Princeton Language and Intelligence Postdoctoral Research Fellowship! Candidates are encouraged to apply by the start-of-review date, Friday, December 1, 11:59 pm (EST), for full consideration. Details: pli.princeton.edu/about-pli/empl…
conda update --all 🫠
simpleaf is ✨amazing✨! - haven't properly tested it but it feels ~50x faster than CellRanger - you get spliced/unspliced/ambiguous split out for free - Rob (@nomad421) have been super nice and responsive to all our questions and occasional bug reports 😊
simpleaf : A simple, flexible, and scalable framework for single-cell data processing using alevin-fry. #SingleCell #DataProcessing #Rust #Bioinformatics @nomad421 academic.oup.com/bioinformatics…
US immigration remains a nightmare for indian born nationals, according to the recent visa bulletin, you can be a olympian or a nobel laureate, according to the new rule you have to wait for about 7/8 years for a green card.
Tragic Immigration News! Oct 2023 Visa Bulletin, the first of 2024 cycle, is out. For Indians on EB-1A, final action date is 1 Jan, 2017 (prev 1 Jan, 2012) and date of filing is 1 July, 2019 (prev 1 Jun, 2022). Indian founders will have to wait 8+ years for a green card!
Matt Damon makes a better case for academic tenure than I’ve ever heard twitter.com/docnoir_/statu…
We can't expect the bioinformatics community to be transparent if this statement is deemed "okay" by editors.
ChatGPT API to ChatGPT_PI
Working through my thesis corrections and GitHub Copilot gracefully auto-completed both the sentence and auto-generated a comment from my supervisor 😂
🎉 Exciting News! 🎉 I am thrilled to announce that I am starting my lab this fall under the gene expression and regulation program of the Wistar Institute (@TheWistar) in Philadelphia! 🧬🔬 #SrivastavaLab #Research #Academia 1/8 avisrilab.org
When people tell me, it’s the paper that maters, not the journal, I wish that were true for me!Unfortunately, a lot of scientists (and many whose work I admire) are influenced by status. I work at a not particularly high-status university and
I dunno… I’ve published tons in @eLife, including my top-cited paper. I’m not worried about them “losing value”. Impact factor is smoke and mirrors💨🪞. Citations matter. Visibility and accessibility matter. Author control matters. eLife has delivered time and again for me!👍
Wholeheartedly agree.
When I share results published in a higher impact journal the audience comments on how interesting or ground breaking the work is SUBSTANTIALLY more than the same work pre-acceptance. The before-and-after publication difference is night and day.
Super excited to present our algorithm, Mellon for computing densities in single-cell landscapes. biorxiv.org/content/10.110…
All postdocs in my lab are paid in the range of 85-95K. One of the reasons I can't go beyond is (reverse) equity concerns from HR. I would ideally pay them 105-115K. I think that's how much I could afford based on funding I can pull in & reducing lab size to a functional minimum.
oh you’re hiring a grad student/postdoc? don’t be shy babe show us the salary
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