search

KrishnaswamyLab / PHATE

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
http://phate.readthedocs.io
Other
472 stars 73 forks source link

Branch point identification #2

Open charliex210 opened 6 years ago

charliex210 commented 6 years ago

Hello, I admire your new method "PHATE" on learning the manifold structure of high dimension data, and I have tried it on our own single-cell RNA-seq dataset. I wonder would you release the code of branch point identification algorithm mentioned in your preprint. Thanks!

kmoon3 commented 6 years ago

Hi, Thanks for your interest in PHATE! We do plan to release the branch point identification algorithm. However, it will probably take a month or two before the code is ready for distribution. Do you have a language preference?

charliex210 commented 6 years ago

It would be nice if you can release the algorithm! For me both python and R are OK. Thanks!

chlee-tabin commented 6 years ago

Hi I am trying out PHATE too and wondering whether there is any code snippet to identify branch points. Without it it is difficult to identify genes at each branches etc. Even snippets of code used to generate some of the figures of the bioarxiv paper would be helpful!

sameet commented 5 years ago

Yes, this will be very useful to have, and will make PHATE ultimately more useful.

jfouyang commented 5 years ago

Hi, I am really impressed with the method and the PHATE embeddings looks really good with my own scRNA-seq dataset. I was wondering if there will be any updates soon to include branch point identification as that will be really useful for my analysis.

And thanks again for the great work!