/INDEED-R-codes

R code implementing INDEED algorithm from Zuo et. al.'s Methods paper (INDEED: Integrated differential expression and differential network analysis of omic data for biomarker discovery)

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INDEED R codes

These R codes implement INDEED algorithm from Zuo et. al.'s Methods paper: INDEED: Integrated differential expression and differential network analysis of omic data for biomarker discovery (PMID: 27592383). It contains one demo (i.e., demo.R and files in Data folder) and one function.R.

Update

03/02/2017

I submit version 1.0 which contains one demo (i.e., demo.R and files in Data folder) and one function.R.

  • demo.R implements the proposed INDEED algorithm in Methods paper using metabolomic data.
  • function.R implements three helper functions that are used in demo.R.

09/30/2019

We now have a ready-to-install INDEED R package here, thanks to the Ressom Lab team-members. This R package will be actively updated and maintained. Please download and test it if you are interested. In the meantime, I will keep this INDEED-R-codes repository open in case there're readers want to reproduce my work in the Methods paper.