Robert Aboukhalil

Hi there! I maintain https://sandbox.bio and thought it would be a relevant resource to add to your list 🙂 It features interactive CLI tutorials and there is no repo to...

t-coffee

4

_Originally posted by @orangeSi in https://github.com/biowasm/aioli/issues/40#issuecomment-1752002835_ when I use the same way to complie(```emscripten/emsdk:2.0.34```) software ```t_coffee``` (http://tcoffee-packages.s3-website.eu-central-1.amazonaws.com/#Stable/Latest/) to wasm and got ```t_coffee.wasm``` without error, but when run in Chrome get...

Is there a way to compile Salmon to a 32-bit architecture by any chance? I ask because I'd like to have single-cell tutorials on sandbox.bio v2 that use Salmon. But...

Tools without tutorials yet: * kraken2 (WIP) * freebayes * mummer * kalign * fasttree Tools not in Dockerfile: * vcflib (`apt-get install -y libvcflib-tools`) * bioawk (`apt-get install -y...

There are lots of small .bin files to download when launching certain commands, which is slow - [ ] Build tools as static when possible to avoid downloading lots of...

- [x] Hide terminal until ready and show what it's doing - https://github.com/sandbox-bio/sandbox.bio/commit/2320328219f17e64858299715824ae3505e2bd39 - [x] Playground for terminal shouldn't have extraneous break lines - https://github.com/sandbox-bio/sandbox.bio/commit/d919452d41b5b90d31e15c1c08d11e75ee44d6d9 - [x] Preload `.bin` files...

* https://bioinf.shenwei.me/seqkit/usage/ * https://bioinf.shenwei.me/seqkit/tutorial/ * https://bioinf.shenwei.me/csvtk/tutorial/ * Uses `csvtk` a lot * Can ignore `memusg`

* https://github.com/soedinglab/MMseqs2/wiki/Tutorials#metagenomic-pathogen-detection * During tests, had to set RAM to 2GB to run a simple `mmseqs easy-search examples/QUERY.10.fasta examples/DB.1000.fasta alnRes.m8 tmp` and `foldseek easy-search example/d1asha_ example/ aln tmpFolder`, so might...

Test that: - [x] Expected bioinformatics tools are present, and are at the expected version - [x] Exercises work - [x] Quizzes work - [ ] File system sync works...