#bioconda — Public Fediverse posts

Over last few days I wrote about publishing #Python packages to #PyPI and #bioconda. Enjoy!
#bionformatics
https://wasi.ovh/yachay/posts/2026/publish_python/

This cannot be:

I am trying to compile a few stats for the #Snakemake executor plugin for #SLURM on #HPC systems. Preparing for a lighting talk at the #SnakemakeHackathon2026

PyPi: 20,000 downloads last month
BioConda: > 60,000 total (aggregated over all versions)

Impressive as it might be, this is contradictory. PyPi would exceed BioConda by a huge margin.

Does anyone know how to get all-time statistics from either platform? #BioConda or #PyPi?

This cannot be:

I am trying to compile a few stats for the #Snakemake executor plugin for #SLURM on #HPC systems. Preparing for a lighting talk at the #SnakemakeHackathon2026

PyPi: 20,000 downloads last month
BioConda: > 60,000 total (aggregated over all versions)

Impressive as it might be, this is contradictory. PyPi would exceed BioConda by a huge margin.

Does anyone know how to get all-time statistics from either platform? #BioConda or #PyPi?

This cannot be:

I am trying to compile a few stats for the #Snakemake executor plugin for #SLURM on #HPC systems. Preparing for a lighting talk at the #SnakemakeHackathon2026

PyPi: 20,000 downloads last month
BioConda: > 60,000 total (aggregated over all versions)

Impressive as it might be, this is contradictory. PyPi would exceed BioConda by a huge margin.

Does anyone know how to get all-time statistics from either platform? #BioConda or #PyPi?

This cannot be:

I am trying to compile a few stats for the #Snakemake executor plugin for #SLURM on #HPC systems. Preparing for a lighting talk at the #SnakemakeHackathon2026

PyPi: 20,000 downloads last month
BioConda: > 60,000 total (aggregated over all versions)

Impressive as it might be, this is contradictory. PyPi would exceed BioConda by a huge margin.

Does anyone know how to get all-time statistics from either platform? #BioConda or #PyPi?

This cannot be:

I am trying to compile a few stats for the #Snakemake executor plugin for #SLURM on #HPC systems. Preparing for a lighting talk at the #SnakemakeHackathon2026

PyPi: 20,000 downloads last month
BioConda: > 60,000 total (aggregated over all versions)

Impressive as it might be, this is contradictory. PyPi would exceed BioConda by a huge margin.

Does anyone know how to get all-time statistics from either platform? #BioConda or #PyPi?

By default, the #Seqera #Containers web interface searches the #bioconda and #condaforge channels 📦

But did you know that you can prepend your search with *any* conda channel?

Try it out: https://seqera.io/containers/

We passed the 100.000 software containers milestone! 🎉
The #usegalaxy project is now hosting 101,393 singularity containers for you on https://depot.galaxyproject.org/singularity/ and via CMFS. And 101,393 Docker containers are hosted by quay.io and @redhat.

#biocontainers rocks!
Thanks to de.NBI @elixir_europe and the amazing #bioconda community.

I'm excited to announce a new episode of the #DeveloperStories Podcast! 🎉 This week we talk to a prominent leader in the biosciences community, Johannes Koester, creator of #Snakemake, #Bioconda, and several others, solving problems by building tools! 🐍

Here are a few ways to listen!

👉 Spotify: https://open.spotify.com/episode/2cTVZ3uRilxEn5DvpvKXyy
👉 Apple Podcasts: https://podcasts.apple.com/us/podcast/snakemake/id1481504497?i=1000633624145
👉 Home Page (with show notes)! https://rseng.github.io/devstories/2023/snakemake/

Had a lot of fun doing this - a nice beginner friendly tutorial 😊 Take your #Python analysis script and build it into a command-line tool, ready for release via @pypi / #bioconda / @BioContainers 🐍🐳🎉

Watch now on YouTube: https://www.youtube.com/watch?v=hOuS6mXCwhk
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RT @nf_core
Hej, todays @nf_core #bytesize talk about python script packaging with Phil Ewels will start in 8 minutes, 1pm CEST. Find the zoom link here: https://nf-co.re/…
https://twitter.com/nf_core/status/1653351656686333953

Did you know you can retrieve annotation and gene expression data from #Bgee and perform #TopAnat analyses in #BioContainers? It's the fashionable way to access curated #GeneExpression 😎
https://biocontainers.pro/tools/bioconductor-bgeedb
#BioConda #Singularity #Docker #bioinformatics #biocuration #RNAseq #microarrays #UberAnat #SIB

#introductions

Hi, I'm a Senior Bioinformatician at SAGA Diagnostics working on #cancer diagnostics, #genomics, #ctDNA, and #liquidbiopsy. I did my PhD at Lund University working on large-scale #breastcancer #transcriptomics, and I’m still affiliated with LU working on cancer-related projects.

Before #bioinformatics I worked a lot on the #FreeBSD operating system. Nowadays I mostly contribute to #Bioconda (core team), #condaforge (R stack co-maintainer), and other bioinf / #datasci projects.