UCSC's .2bit files provide a compact representation of the DNA sequences for a genome. The TwoBitParser class provides the access to the content of this file.
File f = new File("/path/to/file.2bit");
TwoBitParser p = new TwoBitParser(File f);
String[] names = p.getSequenceNames();
for(int i=0;i<names.length;i++) {
p.setCurrentSequence(names[i]);
p.printFastaSequence();
p.close();
}Navigation: Home | Book 4: The Genomics Module | Chapter 6 : .2bit file format