iiinova — where your digital self keeps evolving

Armin Töpfer @armintoepfer.com · 01/11/2025

What's going on in #bioinformatics? Any new cool alignment or mapping algos? Any advances in kmer hashing?

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Armin Töpfer @armintoepfer.com · 19/10/2025

When a candidate's CV matches the job description too well

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Armin Töpfer @armintoepfer.com · 18/10/2025

No updates from my side today

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Armin Töpfer @armintoepfer.com · 22/07/2025

No updates from my side today.

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Armin Töpfer @armintoepfer.com · 16/02/2025

I've been unhappy with my Sonos equipment. Last night, I've decided to take things into my own hands and created a local sonos controller in the browser with LLM help. Once I grok the full API, final frontier will be an Android app. Everything is 100% open source github.com/armintoepfer...

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Armin Töpfer @armintoepfer.com · 16/01/2025

Back in town, this time staying a few nights in SF. Good to be back and looking forward to meeting y'all @pacbio.bsky.social

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Armin Töpfer @armintoepfer.com · 16/12/2024

Testing out #cursor AI, anyone got great tips and tricks?

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Armin Töpfer @armintoepfer.com · 05/12/2024

Anyone got experience with code review bots? Are they any good? #AI

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Armin Töpfer @armintoepfer.com · 04/12/2024

Yeah, but those are tricks to make mm2 faster. I'm thinking of a completely new approach that might be 10-100x faster. It needs to span larger SVs and handle Q10-Q40 reads. I don't have the answer. What I have is a superior ksw2 GPU implementation, but it's closed source.

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Armin Töpfer @armintoepfer.com · 04/12/2024

I wonder if someone will sit down and write a better map-and-align tool than minimap2. If yes, will it (I) still support crappy 90% accuracy long reads or not and (II) offer interoperability being written in C or C++?

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Armin Töpfer @armintoepfer.com · 03/12/2024

Advent of code, hardcore edition Day A: Write fizz buzz in Haskell. You need to create a new DSL. You can only use letters of {A,C,G,T}. The code must be stored in DNA. You need to sequence and assemble it. Maximum coverage of 3-fold. Implicit error correction is allowed. Hint: Use HiFi.

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Armin Töpfer @armintoepfer.com · 02/12/2024

There's no traffic jam on the extra mile

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Armin Töpfer @armintoepfer.com · 30/11/2024

Things that happen if you spawn uint -1 threads on MacOS. The system instantly freezes and reboots after like 10 seconds.

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Armin Töpfer @armintoepfer.com · 29/11/2024

Performance review time of the year

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Armin Töpfer @armintoepfer.com · 29/11/2024

Trying out the new QwQ to rewrite gepard: Step 12: Think about parallelization for speed. - Given the large size of the sequence, parallel processing will be essential. - C++ allows for multi-threading, but for更大规模的并行，可以考虑使用GPGPU CUDA。 - 如果能够将计算分解为可以在GPU上并行执行的小任务，那么CUDA将是一个很好的选择。 ...yeah

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Armin Töpfer @armintoepfer.com · 28/11/2024

Just changed my handle to @armintoepfer.com pretty sweet feature

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Armin Töpfer @armintoepfer.com · 28/11/2024

I'm not used to having a normal work day from 8-4. Thanksgiving break shows me the real European work life balance that I get once per year. Usually I have 3-5 meetings between 5-9pm, 10 ppl pinging me on slack, verification churn, and chain of command asking me for updates.

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Armin Töpfer @armintoepfer.com · 24/11/2024

AI will help the ambitious to become more productive and successful. But you need to have a solid background to innovate, hands-on experience to make things really fast, must have suffered to grow, and be able to articulate and explain a hard problem. I need you to build the nexgen #PacBio. Apply

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Armin Töpfer @armintoepfer.com · 24/11/2024

Tis the season, baking with the kids

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Armin Töpfer @armintoepfer.com · 23/11/2024

What a banger of a disc print.

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Armin Töpfer @armintoepfer.com · 23/11/2024

Tired of chasing streaming providers, I just got this gem, forever.

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Armin Töpfer @armintoepfer.com · 22/11/2024

I made fried rice. Uncle Roger would approve.

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Armin Töpfer @armintoepfer.com · 20/11/2024

True leadership recognizes the unseen effort that prevents chaos — humility begins with appreciating the fires that never had to be fought.

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Armin Töpfer @armintoepfer.com · 20/11/2024

So, #PacBio made the jump. Where are the UK folks? Where are our friends that can only read stories?

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Armin Töpfer @armintoepfer.com · 20/11/2024

The upcoming SPRQ chemistry for #PacBio #Revio will be accompanied with a software update to improve the on-instrument 5mC methylation performance and introduce 6mA calling 🎉. Every HiFi read comes with both signals – for free. This will also enable Fiber-seq. Talk to your @pacbio.bsky.social rep!

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Armin Töpfer @armintoepfer.com · 20/11/2024

I've recently created a background for a Christmas card using #midjourney. Feel free to use ;)

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Armin Töpfer @armintoepfer.com · 20/11/2024

It's that time of the year again. The first snow is falling and self evaluation for the yearly performance review is due.

media.tenor.com

fry from futurama blowing a party horn

ALT: fry from futurama blowing a party horn

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Armin Töpfer @armintoepfer.com · 19/11/2024

Nice! Long read all the way <3

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Armin Töpfer @armintoepfer.com · 18/11/2024

And that bsky doesn't support transparent pngs?

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Armin Töpfer @armintoepfer.com · 18/11/2024

And that bsky doesn't support transparent pngs?

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Armin Töpfer @armintoepfer.com · 18/11/2024

I just found my next Christmas work sweater

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Armin Töpfer @armintoepfer.com · 18/11/2024

Thank you. I'll have a look, though it's python and likely not fast enough.

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Armin Töpfer @armintoepfer.com · 17/11/2024

Sounds like I need to implement it on my own.

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Armin Töpfer @armintoepfer.com · 17/11/2024

What an amazing night. After 20 years last #qlimax ever. 9 hours of dancing, now back at home...time to sleep at 9:30am. I wore my swag from 2006, my first visit

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Armin Töpfer @armintoepfer.com · 16/11/2024

Three pivotal moments in long-read #PacBio DNA sequencing - HiFi for everyone - HiFi on your bench - What I'm cooking right now #bioinformatics at scale to enable science

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Armin Töpfer @armintoepfer.com · 16/11/2024

Three pivotal moments in long-read #PacBio DNA sequencing - HiFi for everyone - HiFi on your bench - What I'm cooking right now #bioinformatics at scale to enable science

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Armin Töpfer @armintoepfer.com · 16/11/2024

Looks like you didn't look into my bio. It's DNA sequencing.

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Armin Töpfer @armintoepfer.com · 16/11/2024

This is it. Me and the boys are going to the last #qlimax. Just found my swag from 2006...will wear it with pride. Back in the days, #hardstyle wasn't that commercial yet. Let's hope for some great old-school sets and DJs.

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Armin Töpfer @armintoepfer.com · 15/11/2024

Attention to detail and minimalism is a virtue that I fully support. I'm afraid to start writing in this beautiful notebook by ia.net/notebook. I would, but I didn't know what. Maybe "Scaling Genomics: My Last Decade from Fridges to Benchtops and Beyond" @pacbio.bsky.social

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Armin Töpfer @armintoepfer.com · 15/11/2024

Getting ready for the next deep learning #ML project, beefed up my current 2x64c Genoa server with 1.5 TB RAM and 9 GPUs. One PCIe slot is broken...

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Armin Töpfer @armintoepfer.com · 15/11/2024

Tomorrow, I'll visit #qlimax for the last time. Went there 2006 for the first time...time flies

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Armin Töpfer @armintoepfer.com · 15/11/2024

If you are a #C++ developer, either have a #bioinformatics or #CUDA background, and take pride in your engineering and/or algorithmic skills, I'm looking for a Senior Staff Engineer at @pacbio.bsky.social. You can work remotely. Feel free to ping me or go to pacb.com/careers Please spread the word

pacb.com

Careers - PacBio

PacBio is always looking to add the best and brightest minds to our world-class company. Our highly interdisciplinary team is best suited for individuals who are creative, forward thinking, and who ap...

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