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Rob Patro
@
nomad421
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Assistant Professor @ Stony Brook University. I ♥ science & have a serious interest in (compiled, statically-typed) programming languages! Views are my own.
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9.937
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700
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3.171
Osobe koje vas prate
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Dr. Robyn Lee
@robyn_s_lee
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15 h |
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Happy to see this work with @BillHanage published! A big thank you to our collaborators and co-authors, in particular, the Nunavik Regional Board of Health and Social Services & Dr. Jean-François Proulx. twitter.com/UofT_dlsph/sta…
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Alicia Oshlack
@AliciaOshlack
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10 h |
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New paper from PhD student Andreas Halman evaluating short tandem repeat genotyping tools in exome data.
biorxiv.org/content/10.110…
Constructive comments and criticisms welcome.
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Jason Williams
@JasonWilliamsNY
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14 h |
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Don’t know if @SenSchumer remembers speaking at my @stonybrooku commencement but I remember he like Oatmeal cookies and am happy to bake some the next time he visits @CSHL twitter.com/senschumer/sta…
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Rob Patro
@nomad421
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21 h |
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Narrator: The journal was not, in fact, kidding. twitter.com/NoahHaber/stat…
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Rob Patro
@nomad421
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21 h |
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Looks vary cool! Really wish I could have attended DSB! If you're not already using them, I wonder if some deBGR style tricks could help save even more space on encoding counts ncbi.nlm.nih.gov/m/pubmed/28881…. cc @fataltes (also, what was the intermediate mantis disk without counts?)
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Rayan Chikhi
@RayanChikhi
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21 h |
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Joint work with @m_salson, @ZaminIqbal, @DGautheret. Preprint soon. Some results in pic below, cc @nomad421 @MartinDMuggli @pashadag pic.twitter.com/FJNtZ2WMEM
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Michael Love
@mikelove
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3. velj |
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Asked to write a chapter about RNA-seq counts modeling, I used #rstats bookdown to put all the material online. Includes some new workflow pieces like tximeta for import and swish for transcript level:
mikelove.github.io/counts-model
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Michael Schatz
@mike_schatz
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3. velj |
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Thank you. Really all the credit goes to @samkovaka for the brilliant programming and heroic efforts to get it all working. Im really excited to use this to profile mutations that have never been seen before in cancer and other important diseases
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Michael Schatz
@mike_schatz
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3. velj |
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UNCALLED works directly from signal data, and complements the amazing work @mattloose et al also posted today to demonstrate streaming basecalling for a similar capability: twitter.com/mattloose/stat…
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bioRxiv
@biorxivpreprint
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3. velj |
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Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED biorxiv.org/cgi/content/sh… #bioRxiv
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Rafael Irizarry
@rafalab
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3. velj |
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The Role of Academia in Data Science Education is now published. We argue that data science is not a discipline but an umbrella term for a complex process involving a team with complementary skills. We then provide recs for designing academic programs.
hdsr.mitpress.mit.edu/pub/gg6swfqh/
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Titus Brown
@ctitusbrown
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2. velj |
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I welcome our new rust overlords… :) twitter.com/jpummil/status…
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Rob Patro
@nomad421
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2. velj |
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Absolutely; so much better than C++ in this regard (and in most regards so far :)).
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Rob Patro
@nomad421
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1. velj |
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Yes; clippy is phenomenal :). Thanks for the PRs!
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Rob Patro
@nomad421
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1. velj |
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Woohoo, looking forward to it!
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Ben Langmead
@BenLangmead
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1. velj |
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Keeping my eye out for the Feb 4 reveal, but a very good result for @JasonWilliamsNY already! twitter.com/NSF/status/122…
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Rob Patro
@nomad421
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1. velj |
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@luizirber our lab's first tool in #rustlang --- github.com/COMBINE-lab/Te… ! We'd love any rust advice / feedback you might have :)
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Rob Patro
@nomad421
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1. velj |
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Ghostscript can convert to PDF/A ... if you convert to PS first. It's nice to have a little command line script you can run on the PDFs in a directory. On the other hand, the specifics of the PDF/A format deposition are a bit absurd.
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Abhi Nellore
@AbhiNellore
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30. sij |
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1/7 Congrats to @Weederb23, @MadenSean, my co-conspirator @thompson_lab and especially the 🌟 of the show @JulianneDavid for making the very first research paper in @NAR_open's new subjournal NAR Cancer happen! academic.oup.com/narcancer/arti…
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Michael Schatz
@mike_schatz
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30. sij |
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Oh yes, this is just the first of many potential applications. The performance improvement grows with the size of the data, so are keen to apply to metagenomics and pangenomics
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