From 4e5bf0565d67166db2af9b4b1e16d0c633d174f4 Mon Sep 17 00:00:00 2001 From: Sebastian Proost Date: Mon, 13 Mar 2017 16:23:19 +0100 Subject: [PATCH] Update helper.md --- docs/helper.md | 10 ++++++++++ 1 file changed, 10 insertions(+) diff --git a/docs/helper.md b/docs/helper.md index c5a758c..604534c 100644 --- a/docs/helper.md +++ b/docs/helper.md @@ -32,6 +32,16 @@ These scripts will extract the statistics used to assess the quality of samples. Scripts to generate images similar to those presented in the publication. Example data, derived from the *Sorghum bicolor* case study, in included in the repository. +### plot_network + +Script that plots the co-expression neighborhood for a specific gene. A PCC cutoff of 0.7 is included by default, +but users can override this setting using the --cutoff parameter. + + # To draw plot to screen using a PCC cutoff of >= 0.8 + python3 plot_network.py --cutoff 0.8 + +![matrix example](images/plot_network.png "Example of plotted network") + ### matrix_heatmap.py Script to draw a sample distance heatmap (with hierarchical clustering) based