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  1. proslijedio/la je Tweet
    27. sij
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  2. proslijedio/la je Tweet
    28. sij

    Check this out: it's Bowtie2 running in the browser using WebAssembly! 🧬😀 This is still preliminary (I disabled SIMD and threads) but I'd like to figure out how this could be useful as a sandbox on the web; ideas are welcome! cc

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  3. proslijedio/la je Tweet
    27. sij

    "On the performance and design of BioSequences compared to the Seq language" ht

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  4. 20. sij

    All the code is available in GitHub and everyone is invited to collaborate and report bugs.

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  5. 20. sij

    We also provide users with a web interface, making it easy for anyone to use RNAsamba in their research projects.

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  6. 20. sij

    Despite using a complex model, RNAsamba is much faster than other neural network-based alternatives. To achieve that, part of the code was written in (and I'm eager to see more tools being written in Rust!)

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  7. 20. sij

    In our evaluations, RNAsamba outperformed other state-of-the-art tools for discovery in multiple independent datasets. We also show that it can be used to identify truncated mRNAs and sORFs.

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  8. 20. sij

    We are excited to announce that we just published our paper describing RNAsamba, a neural network-based annotation tool to classify mRNAs/lncRNAs using sequence information.

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  9. proslijedio/la je Tweet
    10. sij

    New blog post: "Oxidizing sourmash: PR walkthrough" I chose a small sourmash PR and added details about my though process. I think this PR is interesting because it is moving code from to , touching all the layers in sourmash.

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  10. proslijedio/la je Tweet
    11. sij

    Do you want to try new software, but don't want to mess with your operating system packaging/installation? Why not contribute a recipe for the new software to ?

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  11. proslijedio/la je Tweet
    10. sij

    Aesthetics are important, but the main point of a figure is NOT to make the paper look pretty. When adding a figure to a paper, think hard about how the visual cues help the reader understand a result. Published network hairballs, for example, rarely covey anything useful to me.

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  12. proslijedio/la je Tweet
    4. sij

    sourmash 3.0.0 released! Officially migrated from C++ to 🎉 Release notes: PyPI: $ pip install sourmash==3.0.0 Bioconda: $ conda install -c conda-forge -c bioconda sourmash=3.0.0

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  13. proslijedio/la je Tweet
    21. pro 2019.

    Ever wondered who is to blame for all the gaps in your genome assembly? Our led by evaluates what's been previously hiding in gaps and how sequencing technologies succeed/struggle with repeat/GC-rich regions.

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  14. proslijedio/la je Tweet
    21. pro 2019.

    In praise of "night science": What is the question?

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  15. proslijedio/la je Tweet
    18. pro 2019.
    Odgovor korisnicima i sljedećem broju korisnika:

    So, pretty happy with Rust for performance, Python for analysis/integration, and how it is stitched together now. Once sourmash 3.0 is released I will post more info in my blog. This thread was longer than expected (but hopefully it makes some sense =]) (10/10)

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  16. proslijedio/la je Tweet
    18. pro 2019.

    The sourmash master branch has been oxidized. Rust has landed. I repeat, rust has landed. cc :)

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  17. proslijedio/la je Tweet
    4. pro 2019.

    10: how did the 5 major get their names? This is slightly tangential to hematology, admittedly, but is a cool story that I’ve been aching to tell since I went through an intense etymology phase many years ago (still have lots of dusty books)./1

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  18. proslijedio/la je Tweet
    3. pro 2019.

    Very excited to announce my latest WebAssembly project: 🧬 It's a playground for samtools, a genomics CLI that I ported from C to so it can run directly in the browser!

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  19. proslijedio/la je Tweet
    25. stu 2019.

    MetaEuk predicts eukaryotic proteins from metagenomes. They extract millions of yet unknown proteins from marine metagenomes . Preprint: Code: The proteins can be searched at

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  20. proslijedio/la je Tweet

    Deciphering eukaryotic gene-regulatory logic with 100 million random promoters

    , , i još njih 2
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