Viewing profile — gabeiscoding

From WBEZ Chicago, it's This American Life. I'm Ira Glass. Stay with us.

I sunk a lot of time trying to get perfect 1-bit font rendering running under Docker (Debian Linux), but could not get it match the precision of the Mac default Arial font renderin…

Feel free to ask me any questions. I put enough documentation in here to make this an easy to copy with your own hardware.

Hi HN, I did this project over the Labor Day weekend. My family runs off our shared Google Calendar. This project was to use a ESP32 and three-color e-ink display to create a wall-…

I felt a loss when the On the Metal podcast series wrapped up. I figured these Oxide guys now have too much real work to do, they won’t be able to keep up this podcast, even if it …

I created a desktop GUI tool [0] that used multiple cores for seam carving images of your choice. Including masking parts of image to keep or remove. The backend code parallelizing…

Cool to see this popping up again. It always impresses if you haven't seen it before and is a cool algorithm to work through. The original paper was discussed on slashdot and back …

The author of this post wrote klib/khash, and uses it in his very popular cpu-intensive bioinformatics programs such as bwa (short read alignment against the human ref genome). I'v…

A much better source for those with an interest in the science is Chris Mason's slides from his recent talk[1] at genetics conference (AGBT) about this that he shared on twitter[2]…

I wrote a GUI for another seam carving library back in 2009[1], and it looks like although in archive mode, you can still access the source as well as the windows / mac binaries. J…

Looks great, but I can't comment more as I haven't used it. It looks to be solving the same problems as DNAnexus, Seven Bridges, BaseSpace etc as a way to wrap open source tools in…

While I think it's great to have Google putting their weight behind standardization efforts like Global Alliance for Genomic Health (GA4GH), I really don't get the need to replace …

They are correct in calling out Illumina's de-facto monopoly rents they are extracting on the market, but sadly I don't share their wildly optimistic view that we are eminent for t…

So, what do you want? Just RStudio? Or do you want more utilities that work together and run locally? (i.e. repeatable workflows in project bundles of scripts + data + saved notebo…

Could you please share some of the 'retrocomputing' podcasts you listen to as well as the app to manage your subscriptions? Sounds fantastic and something I would love to check out…

Nope. It was a Pilot and they are not sure about doing more exomes. From my last chat with Brian Naughton (their lead informatics guy) about this, it sounds like they are planning …

Ahh the efficiency argument. The trick is, academics often have excess manpower capacity in the form of grad students and post-docs. Even though personell is usually one of the hig…

They key is 23andMe was not using bleeding-edge nightly builds but official "upgrade-recommended" releases. GATK currently has no concept of a "stable" branch of their repo (Appist…

On your first point, my post detailed that 23andMe confirmed it was a GATK bug that introduced the bogus variants and the bug was fixed in the next minor release of the software. T…

If you're interested in Next Generation Sequencing (the new "technology" OP referred to to replace microarrays), I wrote a 3-part series on my blog: "A Hitchhikers Guide to Next Ge…

I live in this field, as a computer scientist learning the biology, and trying to make a living with a bootstrapped company. I wrote a post about why GATK - one of the most popular…

Very cool, but I fired up an emacs session and hit Ctrl+N to start scrolling through a file.... doh!