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gc_content.cpp
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gc_content.cpp
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#include <iostream>
#include <fstream>
#include <string>
using namespace std;
int main(int argc, char **argv) {
std::ifstream fin(argv[1]);
std::string line;
cout << "-------------------------\n";
cout << " GC content calculator: \n";
cout << "-------------------------\n";
while(std::getline(fin, line)) {
if(line.empty()){
continue;
}
else if (line[0] == '>'){
cout << "Sequence: " << line.erase(0, 1) << "\n";
}
else {
float a_count = 0;
float c_count = 0;
float g_count = 0;
float t_count = 0;
int len = line.length();
for (int i = 0; i < len; i++) {
char c = line[i];
if (c == 'A'){
++a_count;
} else if (c == 'C'){
++c_count;
} else if (c == 'G'){
++g_count;
} else if (c == 'T'){
++t_count;
}
}
double gc_content = ((c_count + g_count) / (a_count + c_count + g_count + t_count));
cout << gc_content << "\n";
cout << "\n";
}
}
return 0;
}