gexijin / idepGolem

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Add additional clustering analysis methods #303

Open gexijin opened 2 years ago

gexijin commented 2 years ago

Is your feature request related to a problem? What value do you see this adding? Please describe. Right now, iDEP provides hierarchical clustering and k-means clustering in the clustering tab. But many other methods exist for clustering analysis.

Describe the solution you'd like Add the option of other methods like model-based clustering, etc.

EricTulowetzke commented 2 years ago

I will look into this for us. something like the pathways tabs

EricTulowetzke commented 2 years ago

@gexijin I plan to read these two papers tomorrow and would like your input.

Model-Based Clustering for Expression Data via a Dirichlet Process Mixture Model: https://dahl.byu.edu/papers/dahl-2006.pdf

dirichletprocess: An R Package for Fitting Complex Bayesian Nonparametric Models: https://cran.r-project.org/web/packages/dirichletprocess/vignettes/dirichletprocess.pdf

gexijin commented 2 years ago

Eric, there are so many clustering methods. This looks interesting. Today at 1pm students in my 736 are talking about model based clustering , join us if you want.