Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
  • Loading branch information
emad2 authored May 30, 2017
1 parent f140d9a commit 6f993eb
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -102,5 +102,5 @@ To test whether ProGENI runs as expected on your machine, you can use the sample
python3 ProGENI.py gene_expr_sample.csv response_sample.csv network_sample.csv -nr 2
```
# Running ProGENI_simplified
ProGENI_simplified.py provides a simplified implementation of ProGENI. In this variation, the Pearson correlation coefficient of network transformed gene expressions and phenotype is used to rank the genes. In other words, the steps involving identification of a RCG set and ranking genes in the network with respect to the RCG are removed.
ProGENI_simplified.py provides a simplified implementation of ProGENI. In this variation, the Pearson correlation coefficient of network transformed gene expressions and phenotype is used to rank the genes. In other words, the steps involving identification of a RCG set and ranking genes in the network with respect to the RCG are removed. This method is called "ProGENI-PCC" in the manuscript.
Usage of this variation is very similar to ProGENI.py, except that -nr and -pr do not need to be provided.

0 comments on commit 6f993eb

Please sign in to comment.