el_pa_b

5 ms·

1. 1.▲
   Show HN: A self-hosted collaborative viewer for pathology slides (Rust, WebGL2)(github.com)

   3 points by el_pa_b 8mo ago|0 comments
2. 2.▲
   by el_pa_b 8mo ago

   I'm curious about the "core logging" photo. Where can I find one? Do you have an implementation of your solution? I would be curious to have a look at it.
3. 3.▲
   by el_pa_b 8mo ago

   Nice!
4. 4.▲
   by el_pa_b 8mo ago

   Thanks for sharing! I agree that newer scientific formats will need to deeply think about how they are deciphered directly from cloud storage.
5. 5.▲
   by el_pa_b 8mo ago

   Yes, they can be huge, and for modalities like multiplex immunofluorescence with up to 20 channels, you're often dealing with very faint proteomic signals. Preserving that signal is critical, and compression can destroy it quickly.
6. 6.▲
   by el_pa_b 8mo ago

   Yes, I agree. I'm not persisting the WSI locally, which creates a smoother user experience. But I do need to transfer tiles from server to client. They are stored in an LRU cache and evicted if not used.
7. 7.▲
   by el_pa_b 8mo ago

   Currently we only support TIFF and SVS with JPEG and JPEG2000 compression formats. I plan on supporting more file extensions (e.g. NDPI, MRXS) in the future, each with their own compression formats.
8. 8.▲
   by el_pa_b 8mo ago

   As data scientists, we usually don't get to choose. It's usually up to the hospital or digital lab's CISO to decide where the digitized slides are stored, and S3 is a fairly common option. That being said, I plan to support m
9. 9.▲
   by el_pa_b 8mo ago

   Yes there is a requirement to work with the vendor format. For instance, TCGA (The Cancer Genome Atlas - a large dataset of 12k+ human tumor cases) has mostly .svs files (scanned with an Aperio scanner). We tend to work with these formats a
10. 10.▲
    by el_pa_b 8mo ago

    When WSI are stored on-premise, they are typically stored on hard drives with a filesystem. If you have a filesystem, you can use OpenSlide, and use a viewer like OpenSeaDragon to visualize the slide. WSIStreamer is relevant for storage sys
11. 11.▲
    by el_pa_b 8mo ago

    Thanks! Indeed, digital pathology, satellite imaging and geospatial data share a lot of computational problems: efficient storage, fast spatial retrieval/indexing. I think this could be doable. As for digital pathology, the field is ve
12. 12.▲
    Show HN: Streaming gigabyte medical images from S3 without downloading them(github.com)

    161 points by el_pa_b 8mo ago|48 comments
13. 13.▲
    by el_pa_b 8mo ago

    I'm using this setup as well, and I've been as far as writing a small Telegram bot to send input to Claude when it's stopped running via a Stop Hook https://github.com/PABannier/claude-telegram-bot
14. 14.▲
    Show HN: I built a distributed key-value store in Rust (~2K LOC)(github.com)

    1 points by el_pa_b 1y ago|0 comments
15. 15.▲
    by el_pa_b 2y ago

    Thank you!
16. 16.▲
    by el_pa_b 2y ago

    Hello! I ported Suno AI's Bark text-to-speech model in C/C++ to allow fast, realistic, multilingual audio generation on the CPU. Generating a 5-second audio with vanilla Bark takes 1 minute on a M1 Pro CPU. Using my port in C++ wi
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    Show HN: Bark.cpp, fast TTS model for multilingual realistic audio generation(github.com)

    3 points by el_pa_b 2y ago|3 comments