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songw01 / MEGENA

Multiscale embedded gene co-expression network analysis
GNU General Public License v3.0
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new MI and bicor, parallel module clustering using ClusterR #1

Open ryananeff opened 6 years ago

ryananeff commented 6 years ago

You will find two new types of correlation metrics: mutual information (discrete) and bicor (from WGCNA), as well as parallel module clustering using the ClusterR package which provides a implementation of PAM called Cluster_Medoids similar to the R cluster package.

I also added a termination number parameter when calculating the PFN to give up the calculation once only a certain number of edges per iteration are added.

It also brings the (1+r)/2 alternative correlation metric to MEGENA.

songw01 commented 5 years ago

Hi Ryan, can you please also submit 'DESCRIPTION' file by changing its version to 1.3.7-1? Let's see how this version works out. Sorry for late turn around. I will try to catch up with github stuff more frequently now.