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Joseph Min proslijedio/la je Tweet
I've spent a lot of time the past two weeks writing and editing R and python code for
#scRNAseq analysis. Python has eclipsed R. Don't @ me.Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Can't imagine how many times he had to practice this to condense that much information.https://twitter.com/hjpimentel/status/1224070402973913088 …
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Joseph Min proslijedio/la je Tweet
Here's the analysis; hopefully this clarifies the issue: https://fromsystosys.netlify.com/2020/01/31/comparing-ensembl-gtf-and-cdna/ … I'm disappointed how the Ensembl website is unclear about this. Yeah, and I'm using what I learnt at
#rstudioconf2020!Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Joseph Min proslijedio/la je Tweet
I'm teaching an introduction (to an introduction) to single-cell RNA-seq today and making use of slides that others might find useful: https://figshare.com/articles/Introduction_to_single-cell_RNA-seq_technologies/7704659 …
#scRNAseqHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Joseph Min proslijedio/la je Tweet
The
@Caltech Bioinformatics Resource Center is hosting a workshop on the analysis of single-cell RNA-Seq data (no command line experience is required.) Register here https://forms.gle/qieQRMgm13hRsvps5 …pic.twitter.com/HaaXroIoBs
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Joseph Min proslijedio/la je Tweet
A thread about a landmark reproducibility and usability achievement by
@JaseGehring for his@NatureBiotech paper "Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins." The reproducibility repository is here: https://github.com/pachterlab/GPCTP_2019 …. 1/19Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
At LAX waiting for my flight that was supposed to leave at 10:50am when I heard an announcement that it is delayed to "approximately" 3 pm...
@KoreanAir@KoreanAir_KEpic.twitter.com/ECNH4HouNj
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Joseph Min proslijedio/la je Tweet
@Caltech friends, don't miss this Thursday's seminar by@reshmapshetty of@Ginkgo Bioworks. You will be inspired by what is possible with modern industrial synthetic biology. (Spalding Labs, 4pm).http://www.cce.caltech.edu/master-calendar/86348 …Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
One thing I would like to see is being able to run system commands by prefixing it with an exclamation mark ("!"), just like how Python works in
@GoogleColab. Currently, we have to use the R `system` function to do that, which does not capture live output.Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
This just shows how powerful (and useful)
@GoogleColab can be for scRNA-seq processing. Excited to see when R will be officially supported!Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Thanks to
@johntigue's Monocle 3@GoogleColab notebook,@LambdaMoses' R notebook for analysis of brain cells from an E18 mouse, and kallisto | bustools for fast pre-processing of single-cell RNA-seq, I've set up an end-to-end@GoogleColab for Monocle 3:https://colab.research.google.com/github/pachterlab/kallistobustools/blob/master/notebooks/kb_monocle.ipynb …Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Joseph Min proslijedio/la je Tweet
Fixing our
@Prusa3D will be a huge pain, but still easier than fixing the read and metadata mess from some of the the published single-cell RNA-seq data we've recently downloaded from the SRA.pic.twitter.com/s4k4lmAqM8
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Fast and simple RNA velocity on the cloud!https://twitter.com/sinabooeshaghi/status/1193764010262331392 …
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Joseph Min proslijedio/la je Tweet
The
@GoogleColab notebook that@sinabooeshaghi just ran live at#gi2019 https://tinyurl.com/1min-scrnaseq Run it by just clicking on the link and selecting "Run all" from the "Runtime" menu. A minute to set up a machine from scratch and 1 min. for the demo taking reads -> PCA.Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Joseph Min proslijedio/la je Tweet
Amazingly fast compared to CellRanger. This is awesome. I've been trying this with my scRNA data since yesterday and it took only a few hours to process 100,000 cells (of 8 biological batches)! Also authors constantly update this nearly on a daily basis. SUPER COOLhttps://twitter.com/sinabooeshaghi/status/1191854880215969794 …
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`kb-python` released!https://twitter.com/sinabooeshaghi/status/1191854880215969794 …
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Joseph Min proslijedio/la je Tweet
FYI if you are working with single-cell RNA-seq data and you’re in Boston,
@sinabooeshaghi will be talking today at 4pm in the Yosemite room@broadinstitute on https://www.biorxiv.org/content/10.1101/673285v2 … + a number of exciting developments since the preprint was posted. cc organizer@yarbsalocin.Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi
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