This file contains the implementation of the MSAReader class and its derived classes. More...

#include <iostream>
#include <vector>
#include <string>
#include <fstream>
#include <sstream>
#include <algorithm>
#include <stdexcept>
#include "common.h"
#include "msaReader.h"

Detailed Description

This file contains the implementation of the MSAReader class and its derived classes.

The MSAReader class provides functionality to read multiple sequence alignments (MSA) from different file formats. It supports reading MSAs in a2m, a3m, stockholm, fasta, CLUSTAL, pfam and aln formats. The MSAReader class is an abstract base class, and the derived classes provide specific implementations for each format.