Add argparse feature to GC calculator

GC_argparse.py

@@ -0,0 +1,67 @@
+# ===================================================== DEPENDENCIES ==============================================================
+import argparse
+from Bio.Seq import Seq
+from Bio.SeqUtils import gc_fraction
+from matplotlib import pyplot as plt
+plt.style.use('seaborn-v0_8')
+
+# ===================================================== ARGPARSE SETUP =============================================================
+# Create parser instance
+parser = argparse.ArgumentParser(description='Calculate GC content of sequence')
+# Add positional arguments
+parser.add_argument('seq', nargs= '+', help = 'Enter a single or multiple DNA/RNA sequences of the same length')
+
+# Parse command-line arguments that were passed to the script and store them as attributes to args object
+args = parser.parse_args()
+
+# Convert sequences from strings to Seq objects
+sequence_list= [Seq(seq) for seq in args.seq]
+
+# ===================================================== FUNCTIONS ==================================================================
+def calc_gc(sequence_list):
+    ''' Calculates GC content of sequences and returns list of GC content of each sequence.
+    '''
+    gc_list = []
+    for i in sequence_list:
+        gc_list.append(round(gc_fraction(i), 2))
+    return gc_list
+
+
+def create_GC_barplot(sequence_list, gc_list):
+    '''Function that creates barplot of the GC value calculated (not with SWAN) of multiple sequences.
+    '''
+    # Convert sequences in sequence_list from Seq objects to strings
+    x_values = [str(seq) for seq in sequence_list]
+
+    fig, ax = plt.subplots()
+
+    # Create the bar plot
+    bar_container = ax.bar(x_values, gc_list, width = 0.3, color = '#3937b3')
+
+    # Set plot titles and labels
+    ax.set_title("Sequence GC Content Analysis")
+    ax.set_xlabel("Sequences")
+    ax.set_ylabel("GC content")
+
+    # Add labels on the bars
+    ax.bar_label(bar_container)
+
+    # Set axis limits if only one sequence is present
+    if len(sequence_list) == 1:
+        ax.set_xlim(-0.5, 0.5)
+
+    # Style the spines (borders) of the plot
+    ax.spines['top'].set_color('0.5')
+    ax.spines['right'].set_color('0.5')
+    ax.spines['bottom'].set_color('0.5')
+    ax.spines['left'].set_color('0.5')
+
+    # Display the plot
+    plt.show()
+
+# ===================================================== LOGIC ===============================================================
+# Calculate gc_content of passed in sequences
+y_values = calc_gc(sequence_list)
+
+# Create barplot of GC content values
+create_GC_barplot(sequence_list, y_values)