Summary: We present a program to improve haplotype reconstruction by incorporating information from paired-end reads, and demonstrate its utility on simulated data. We find that given a fixed coverage, longer reads (implying fewer of them) are preferable. Availability: The executable and user manual can be freely downloaded from ftp://ftp.sanger.ac.uk/pub/zn1/HI.
['Quan Long', 'Daniel G. MacArthur', 'Zemin Ning', 'Chris Tyler-Smith']
HI: haplotype improver using paired-end short reads