We recently released a tool to help you with this. 🚀 Say hello to pridepy — your Python for grabbing data from the @pride-ebi.bsky.social!
To search metadata or download files via FTP, Aspera, Globus, or S3, and is perfect for bioinfo workflows.
Check it out 👉 github.com/PRIDE-Archiv...

So easy to download data from @pride-ebi.bsky.social & #ProteomeXchange using pridepy github.com/PRIDE-Archiv.... Here is a short introduction for students youtube.com/watch?v=TiuG... generated with #GeminiNotebook #NotebookLM #OpenData

Try embracing your #PRIDE instead!. We provide pridepy that
github.com/PRIDE-Archiv... makes accessing thousands of files fabulously easy — individual files or whole experiments, via Aspera, FTP, or HTTP.
Paper: joss.theoj.org/papers/10.21...

Just when the week is finishing, I accepted a PR to create a #bioconda package for pridepy github.com/PRIDE-Archiv.... Looks like #pridepy is now automatically integrated into pipelines. Thanks to Jonas Scheid for the PR.

OK, for those that reanalyze data in proteomics #pridepy now can download not only from PRIDE but from other ProteomeXchange Partners. github.com/PRIDE-Archiv.... Really easy to configure and have control for FTP, HTTPS fallback, etc.

Some researchers get their boost from papers or grants.
My adrenaline rush comes from pull requests and seeing others use our tools.
I got two happiness shots today:
- www.nature.com/articles/s41... using #quantms
- github.com/PRIDE-Archiv... new PR to #pridepy tool
☕🔥

Hi, the web interface is designed to download one file at a time - because of constrains with long-term private storage et EBI -. You can use the pridepy python tool (github.com/PRIDE-Archiv...) to stream multiple files. If you have questions let us know.

Relying on a ticket in our support: How do we know the number of RAW files for all the public datasets in @pride-ebi.bsky.social ?

response: github.com/orgs/PRIDE-A...

script: gist.github.com/ypriverol/f2...

Im back from China today. Talk to a lot of users of #PRIDE and had the time to spend time with collaborators in the field and gather a lot of feedback. My first code commit today was to enable for pridepy, to download datasets from #ProteomeXchange that are in iprox. github.com/PRIDE-Archiv...

Pridepy + ChatGPT (for finding and prioritising datasets, and even data files) has been quite fun

Just published in JOSS: 'pridepy: A Python package to download and search data from PRIDE database' https://doi.org/10.21105/joss.07563