References for Whole-Genome Sequencing

• NCBI Short Read Archive (SRA) Documentation
  http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=doc&m=doc&s=doc

• SAMtools
  http://samtools.sourceforge.net/

• SRF format
  http://srf.sourceforge.net/