org.forester.io.parsers.FastaParser

public class FastaParser extends Object

Field Details
- FASTA_DESC_LINE
  
  public static final Pattern FASTA_DESC_LINE
Constructor Details
- FastaParser
  
  public FastaParser()
Method Details
- main
  
  public static void main(String[] args)
- isLikelyFasta
  
  public static boolean isLikelyFasta(File f) throws IOException
  
  Throws:
  
  IOException
- isLikelyFasta
  
  public static boolean isLikelyFasta(InputStream is) throws IOException
  
  Throws:
  
  IOException
- parseMsa
  
  public static Msa parseMsa(File f) throws IOException
  
  Throws:
  
  IOException
- parseMsa
  
  public static Msa parseMsa(InputStream is) throws IOException
  
  Throws:
  
  IOException
- parseMsa
  
  public static Msa parseMsa(String s) throws IOException
  
  Throws:
  
  IOException
- parseMsa
  
  public static Msa parseMsa(byte[] bytes) throws IOException
  
  Throws:
  
  IOException
- parse
  
  public static List<MolecularSequence> parse(File f) throws IOException
  
  Throws:
  
  IOException
- parse
  
  public static List<MolecularSequence> parse(InputStream is) throws IOException
  
  Throws:
  
  IOException

Class FastaParser

Field Summary