3 ms·
The code for Citrus is on GitHub (see online methods). The data was deposited into Cytobank, so if it isn't already available, you could ask them to release it
by apathy 10y ago
The code for Citrus is on GitHub (see online methods). The data was deposited into Cytobank, so if it isn't already available, you could ask them to release it (Cytobank is sort of like GEO for flow/CyTOF data). It's pretty transparent.
- apathy 10y agops. Mouse data doesn't need to be anonymized :-)
- Fordrus 10y agoMouse HIPAA wants to have words with you, apathy! What about mouse privacy?! Despicable, that's what it all is, despicable!!! :D ;) :)
- RA_Fisher 10y agoSo basically, "no". Citrus seems like the algo, not the glue code or total source, if you will. And the data isn't published freely. :(
- apathy 10y agoMost of the libraries for analyzing CyTOF data are already open (from Fluidigm). Did you already check for their data on Cytobank? Granted Nat Med is not as demanding re: reproducibility as say eLife or Bioinformatics, but they're not complete shits like Cell Press either. Ask the authors to open the Cytobank data if they haven't. I don't see why they wouldn't.