diff predict/rtts_plot.py @ 4:a292aaf51735 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/predict/rtts_plot.py	Mon Sep 15 14:52:43 2014 -0400
@@ -0,0 +1,56 @@
+#!/usr/bin/env python
+#Make a plot of reactivity distribution
+
+import sys
+import numpy as np
+import matplotlib
+from pylab import *
+import math
+
+#Convert the reactivities (Make NA to 0)
+def convert_react(a):
+    r = []
+    for i in range(len(a)):
+        if a[i]!='NA':
+            r.append(float(a[i]))
+        else:
+            r.append(float(0))
+    return r
+        
+
+#Make a plot of the distribution
+def make_plot(ar,id_s,path):
+    N = len(ar)
+    a = convert_react(ar)
+    w = 1
+    ind = np.arange(N)
+
+    fig = figure()
+    fig, ax = subplots()
+    ax.bar(ind+w, a, width = w, color = 'r',edgecolor = 'r')
+    ax.set_ylabel('DMS Reactivity')
+    ax.set_xlabel('Nucleotide Index')
+
+    
+    mag = int(math.log(N,10))-1
+    tail = 10**mag
+
+    intervel = int(math.ceil(float(N)/tail)/5)
+    print(N)
+    print(intervel)
+    tl = []
+    k = 0
+    ax.set_xticks(np.arange(0,N,intervel*tail))
+    print(np.arange(0,N,intervel*tail))
+    ax.set_xticklabels(np.arange(0,N,intervel*tail))
+
+    ax.set_title(id_s+" reactivity distribution")
+    savefig(path+id_s+'.tif')
+
+
+
+    
+    
+    
+
+