Create app.py

app.py

@@ -0,0 +1,60 @@
+import gradio as gr
+
+def find_complimentary_dna(dna_to_compliemnt):
+   _complement_seq = ''
+
+   for pos in range(0,len(dna_to_compliemnt)):
+     _last_char = dna_to_compliemnt[len(dna_to_compliemnt)-pos-1]
+
+     if _last_char == 'A':
+       _complement_seq = _complement_seq + 'A'
+     elif _last_char == 'T':
+       _complement_seq = _complement_seq + 'U'
+     elif _last_char == 'G':
+       _complement_seq = _complement_seq + 'G'
+     elif _last_char == 'C':
+       _complement_seq = _complement_seq + 'C'
+  
+   return _complement_seq
+
+def get_protein_from_DNA(DNA):
+  reading_frames =transcribe(DNA)
+  orf_list = []
+
+  for i in range(len(reading_frames)):
+      mRNA = reading_frames[i]
+      one_letter=''
+      found_start = False
+      for codon in mRNA:
+          if codon =='AUG' and not found_start:
+            one_letter +=  '<'
+            found_start = True
+          if codon =='UAA' or codon=='UGA'or codon =='UAG':
+            if found_start:
+              one_letter +=  '>'
+              found_start = False
+            continue
+          one_letter +=  AA_mapping[translate[codon]]
+
+      # mark the valid orf found
+      if one_letter.find('M') != -1:
+        one_letter = '*' + one_letter + '>'
+      orf_list.append(one_letter)
+
+  r = " * means the ORF sequence exists and highlighted in as <>; \n5'to 3' Frame 1:"+ orf_list[0] +"\n5'to 3' Frame 2:" + orf_list[1] + "\n5'to 3' Frame 3:" + orf_list[2] + "\n3'to 5' Frame 1:" + orf_list[3] + "\n3'to 5' Frame 2:" + orf_list[4] + "\n3'to 5' Frame 3:"+orf_list[5] 
+  return DNA, find_complimentary_dna(DNA), r
+
+input1 = gr.inputs.Textbox(label = 'DNA sequence')
+output1 = gr.outputs.Textbox(label = 'Primary Sequence')
+output2 = gr.outputs.Textbox(label = 'Complimentary Sequence')
+output3 = gr.outputs.Textbox(label = 'Open Reading Frames')
+
+interface = gr.Interface(fn=get_protein_from_DNA,
+                         inputs=input1,
+                         outputs=[output1,output2,output3],
+                         title="CSCI1020: Web Application for Transcription/Translation", 
+                         description= "A quick tool for translating a DNA sequence into a protein sequence",
+                         theme = 'huggingface',
+                         layout = 'vertical'
+                         )
+interface.launch()