Harry Vangberg
@harry.vangberg.name
Biotech student at Aalborg University. In a previous life, startup co-founder and software developer.
🌐 https://harry.vangberg.name
🌐 https://harry.vangberg.name
Trying something else.
October 31, 2025 at 9:25 PM
Trying something else.
Grew, and subsequently saw in a microscope, my first E.coli today. Life altering?
October 31, 2025 at 9:20 PM
Grew, and subsequently saw in a microscope, my first E.coli today. Life altering?
I added assignments to the output pane, even though they are technically invisible in R. How often have I not done `my_var <- …; my_var`? It's also consistent – all outputs are in one place, and in the same order as the code. Principle of least astonishment. #rstats
August 13, 2025 at 11:44 AM
I added assignments to the output pane, even though they are technically invisible in R. How often have I not done `my_var <- …; my_var`? It's also consistent – all outputs are in one place, and in the same order as the code. Principle of least astonishment. #rstats
We have errors, console outputs and ggplot. Getting ggplots printed correctly was surprisingly difficult – the logic of R's top-level printing is … finicky: yihui.org/en/2017/06/t... #rstats
August 13, 2025 at 8:49 AM
We have errors, console outputs and ggplot. Getting ggplots printed correctly was surprisingly difficult – the logic of R's top-level printing is … finicky: yihui.org/en/2017/06/t... #rstats
Reading about Jujutsu gave me an idea: maybe bakepipe could simply be a frontend for targets, in the same way jj is a frontend to git? No need to reinvent an execution engine, when what I really care about is how to define the pipeline.
Bakepipe 0.1 is ready, complete with automatic dependency detection + incremental execution. Installable with `devtools`, CRAN later – github.com/vangberg/bak...
August 8, 2025 at 7:51 AM
Reading about Jujutsu gave me an idea: maybe bakepipe could simply be a frontend for targets, in the same way jj is a frontend to git? No need to reinvent an execution engine, when what I really care about is how to define the pipeline.
Day 4 – we have plots (and today the workspace was my dining room)
August 7, 2025 at 12:39 PM
Day 4 – we have plots (and today the workspace was my dining room)
Day 3 of building a friendly R editor (and today's workspace)
August 6, 2025 at 2:57 PM
Day 3 of building a friendly R editor (and today's workspace)
Reposted by Harry Vangberg
🌟 Spotlight on @harry.vangberg.name!
SNP to primers pairs — no more BLAST backlogs.
This notebook fetches the SNP’s flanking sequence from Ensembl, designs primers via Primer3 and runs local BLAST — all in under ~5 s per tweak.
Try it → harry.vangberg.name/posts/autom...
SNP to primers pairs — no more BLAST backlogs.
This notebook fetches the SNP’s flanking sequence from Ensembl, designs primers via Primer3 and runs local BLAST — all in under ~5 s per tweak.
Try it → harry.vangberg.name/posts/autom...
July 3, 2025 at 4:30 PM
🌟 Spotlight on @harry.vangberg.name!
SNP to primers pairs — no more BLAST backlogs.
This notebook fetches the SNP’s flanking sequence from Ensembl, designs primers via Primer3 and runs local BLAST — all in under ~5 s per tweak.
Try it → harry.vangberg.name/posts/autom...
SNP to primers pairs — no more BLAST backlogs.
This notebook fetches the SNP’s flanking sequence from Ensembl, designs primers via Primer3 and runs local BLAST — all in under ~5 s per tweak.
Try it → harry.vangberg.name/posts/autom...
Since CRAN rejected my Bakepipe submission, I guess it is vacay time. See you all in August, where I will see how far I can get on this slightly weird idea for an R development environment I have. Tschüss!
June 25, 2025 at 10:31 AM
Since CRAN rejected my Bakepipe submission, I guess it is vacay time. See you all in August, where I will see how far I can get on this slightly weird idea for an R development environment I have. Tschüss!
Can anybody get Claude Code in VS Code to *reliably* use `terminal-notifier` when it needs user input?
June 25, 2025 at 7:57 AM
Can anybody get Claude Code in VS Code to *reliably* use `terminal-notifier` when it needs user input?
I wrote some code to automate PCR primer design on your local computer with Primer3, BLASTN and @marimo.io – harry.vangberg.name/posts/automa...
Automated PCR Primer Design – Harry Vangberg
Design PCR primers with Primer3 and BLAST on your local computer.
harry.vangberg.name
June 24, 2025 at 11:32 AM
I wrote some code to automate PCR primer design on your local computer with Primer3, BLASTN and @marimo.io – harry.vangberg.name/posts/automa...
Should I complicate the API with `external_in()` to catch this sort-of niche scenario, or keep it simple (but sort of incorrect) with `file_in()`? – github.com/vangberg/bak...
June 22, 2025 at 10:57 AM
Should I complicate the API with `external_in()` to catch this sort-of niche scenario, or keep it simple (but sort of incorrect) with `file_in()`? – github.com/vangberg/bak...
"This is amazing" – www.reddit.com/r/Rlanguage/...
June 20, 2025 at 7:57 AM
"This is amazing" – www.reddit.com/r/Rlanguage/...
Bakepipe 0.1 is ready, complete with automatic dependency detection + incremental execution. Installable with `devtools`, CRAN later – github.com/vangberg/bak...
June 18, 2025 at 11:40 AM
Bakepipe 0.1 is ready, complete with automatic dependency detection + incremental execution. Installable with `devtools`, CRAN later – github.com/vangberg/bak...
Of course – you don't need the GitHub Issue -> Markdown tool. Just ask Claude to pull context from the GitHub issue.
June 13, 2025 at 5:20 PM
Of course – you don't need the GitHub Issue -> Markdown tool. Just ask Claude to pull context from the GitHub issue.
I thought incremental builds would have to wait for 0.2, but here we are.
June 11, 2025 at 8:15 PM
I thought incremental builds would have to wait for 0.2, but here we are.
Claude Code works! Here's the impl. of a DAG: github.com/vangberg/bak.... Spent some time building context in a GH Issue (github.com/vangberg/bak...) inspired by @simonwillison.net (simonwillison.net/2022/Nov/26/... – great talk) and dumped it as context with tools.simonwillison.net/github-issue...
feat: implement dependency graph functionality by vangberg · Pull Request #17 · vangberg/bakepipe
Summary
Implement graph() function to create DAG from parsed script dependencies
Add topological_sort() for determining correct script execution order
Include find_descendants() for marking downst...
github.com
June 6, 2025 at 1:07 PM
Claude Code works! Here's the impl. of a DAG: github.com/vangberg/bak.... Spent some time building context in a GH Issue (github.com/vangberg/bak...) inspired by @simonwillison.net (simonwillison.net/2022/Nov/26/... – great talk) and dumped it as context with tools.simonwillison.net/github-issue...
0.3 is out, skipping images that are already on disk. This should make it much faster if you have many observations. I am up to 36 observations, here's a recent favourite – a cowslip. It has a great name in Danish, "hulkravet kodriver".
June 6, 2025 at 7:42 AM
0.3 is out, skipping images that are already on disk. This should make it much faster if you have many observations. I am up to 36 observations, here's a recent favourite – a cowslip. It has a great name in Danish, "hulkravet kodriver".
It's dark outside, how good is this?
Seen Was Set
YouTube video by Omar-S - Topic
www.youtube.com
June 5, 2025 at 9:04 PM
It's dark outside, how good is this?
Tell me this isn't a real project.
June 4, 2025 at 6:35 PM
Tell me this isn't a real project.
I am technically preparing for a linear algebra exam, but took a break to flesh out the README for bakepipe, my vaporware R pipeline library. I am aiming to get 0.1 out later this month. Would love your thoughts. github.com/vangberg/bak...
GitHub - vangberg/bakepipe
Contribute to vangberg/bakepipe development by creating an account on GitHub.
github.com
June 2, 2025 at 2:55 PM
I am technically preparing for a linear algebra exam, but took a break to flesh out the README for bakepipe, my vaporware R pipeline library. I am aiming to get 0.1 out later this month. Would love your thoughts. github.com/vangberg/bak...
I vibe-coded a tiny tool to export @inaturalist.bsky.social observations to Ankivalenz-formatted Markdown, so my backyard observations can easily be turned into Anki cards. github.com/vangberg/ina...
May 7, 2025 at 8:28 PM
I vibe-coded a tiny tool to export @inaturalist.bsky.social observations to Ankivalenz-formatted Markdown, so my backyard observations can easily be turned into Anki cards. github.com/vangberg/ina...
Bonnie A. Nardi (1993) A Small Matter of Programming
March 17, 2025 at 10:26 AM
Bonnie A. Nardi (1993) A Small Matter of Programming