Re: Data analysis development-wishlists and datasets?
I have explored cytofkit and started to like it a lot specially for offering a one-stop GUI-based solution. I was initially excited to see it supports flowSOM but I have not been able to generate daughter FCS files with the flowSOM cluster annotations (all I get are the phonograph clusters). I reached out to the developers and they acknowledged that deficiency in the code but - as far as I can tell - that has not been yet fixed. I was wondering if either of you (or anyone else) had found a way around it. Is there another package that supports this kind of flowSOM annotation so I can try a workflow similar to what Vinko presented on the link?
Best,
JC
ps: after the post was placed I went and checked the bioconductor website for cytofkit. Under the NEWS link (http://bioconductor.org/packages/release/bioc/news/cytofkit/NEWS in the documentation section I found indication that those bugs have now been potentially fixed. Will try it out.