Add postprocessingmodule

primingsitepredictor/RIBlast output example.txt

+RIblast ris result
+input:queryRNA.fa,database:test_db,RepeatFlag:0,MaximalSpan:70,MinAccessibleLength:5,MaxSeedLength:20,InteractionEnergyThreshold:-4,HybridEnergyThreshold:-6,FinalThreshold:-8,DropOutLengthWoGap:5,DropOutLengthWGap:16
+Id,Query name, Query Length, Target name, Target Length, Accessibility Energy, Hybridization Energy, Interaction Energy, BasePair
+0,Test_Primer,15,Transcript_1,3233,1.49191,-9.76,-8.26809,(0-14:2988-2974) 
+1,Test_Primer,15,Transcript_1,3233,1.02308,-9.76,-8.73692,(0-14:18-4) 
+2,Test_Primer,15,Transcript_1,3233,0.947439,-9.73,-8.78256,(0-14:17-3) 
+3,Test_Primer,15,Transcript_1,3233,0.793049,-9.73,-8.93695,(0-14:16-2) 
+4,Test_Primer,15,Transcript_1,3233,0.483869,-9.73,-9.24613,(0-14:15-1) 
+5,Test_Primer,15,Transcript_1,3233,0.441093,-9.17,-8.72891,(0-14:14-0) 
+6,Test_Primer,15,Transcript_2,1285,0.260102,-9.1,-8.8399,(0-14:1284-1270) 
+7,Test_Primer,15,Transcript_2,1285,0.308504,-9.73,-9.4215,(0-14:1283-1269) 
+8,Test_Primer,15,Transcript_2,1285,0.359773,-9.73,-9.37023,(0-14:1282-1268) 
+9,Test_Primer,15,Transcript_2,1285,0.414262,-9.73,-9.31574,(0-14:1281-1267) 
+10,Test_Primer,15,Transcript_2,1285,0.473033,-9.73,-9.25697,(0-14:1280-1266) 
+11,Test_Primer,15,Transcript_2,1285,0.534123,-9.73,-9.19588,(0-14:1279-1265) 
+12,Test_Primer,15,Transcript_2,1285,0.597302,-9.73,-9.1327,(0-14:1278-1264) 
+13,Test_Primer,15,Transcript_2,1285,0.661445,-9.73,-9.06855,(0-14:1277-1263) 
+14,Test_Primer,15,Transcript_2,1285,0.724659,-9.73,-9.00534,(0-14:1276-1262) 
+15,Test_Primer,15,Transcript_2,1285,0.786234,-9.73,-8.94377,(0-14:1275-1261) 
+16,Test_Primer,15,Transcript_2,1285,0.84594,-9.73,-8.88406,(0-14:1274-1260) 
+17,Test_Primer,15,Transcript_2,1285,0.902197,-9.73,-8.8278,(0-14:1273-1259) 
+18,Test_Primer,15,Transcript_2,1285,0.954797,-9.73,-8.7752,(0-14:1272-1258) 
+19,Test_Primer,15,Transcript_2,1285,1.00572,-9.73,-8.72428,(0-14:1271-1257) 
+20,Test_Primer,15,Transcript_2,1285,1.05547,-9.73,-8.67453,(0-14:1270-1256) 
+21,Test_Primer,15,Transcript_2,1285,1.1081,-9.73,-8.6219,(0-14:1269-1255) 
+22,Test_Primer,15,Transcript_2,1285,1.16012,-9.73,-8.56988,(0-14:1268-1254) 
+23,Test_Primer,15,Transcript_2,1285,1.21706,-9.73,-8.51294,(0-14:1267-1253) 
+24,Test_Primer,15,Transcript_2,1285,1.26811,-9.73,-8.46189,(0-14:1266-1252) 
+25,Test_Primer,15,Transcript_2,1285,1.3178,-9.73,-8.4122,(0-14:1265-1251) 
+26,Test_Primer,15,Transcript_2,1285,1.38695,-9.73,-8.34305,(0-14:1264-1250) 
+27,Test_Primer,15,Transcript_2,1285,1.40247,-9.73,-8.32753,(0-14:1263-1249) 
+28,Test_Primer,15,Transcript_2,1285,1.38231,-9.73,-8.34769,(0-14:1262-1248) 
+29,Test_Primer,15,Transcript_2,1285,1.34893,-9.73,-8.38107,(0-14:1261-1247) 
+30,Test_Primer,15,Transcript_2,1285,1.30604,-9.73,-8.42396,(0-14:1260-1246) 
+31,Test_Primer,15,Transcript_2,1285,1.25994,-9.73,-8.47006,(0-14:1259-1245) 
+32,Test_Primer,15,Transcript_2,1285,1.20881,-9.76,-8.55119,(0-14:1258-1244) 
+33,Test_Primer,15,Transcript_2,1285,1.63873,-9.91,-8.27127,(0-14:674-660) 

primingsitepredictor/postprocessingmodule.py

+# -*- coding: utf-8 -*-
+"""
+Created on Wed Nov 16 16:47:20 2022
+
+@author: baerma
+"""
+import csv
+
+with open("RIBlast output example.txt", 'r') as file:
+    content = file.readlines()
+    print(content[3:][0])
+
+
+#os.chdir('C:/Users/baerma/Desktop/PhD-Local/Lectures/Programming for Life Sciences/priming-site-predictor/primingsitepredictor')
+