Example 5 - Converting LINKAGE pedigree file to CRIMAP format
motivation
Different programs use different data format. In particular, you
may collect your markers and store them in
LINKAGE
format ( LINKAGE pedigree file). Then you may want to use
CRIMAP
to order these markers, but CRIMAP uses a different format
(the .gen file).
There is already an utility program
LNKTOCRI written in Pascal. But Perl can carry
out this function easily (and saving trouble for those
who do not have a Pascal compiler on their machine!).
set up
Of course, you need a LINKAGE pedigree file. Currently, the script
reads only pre-MAKEPED pedigree file.
This is a companion page for
W Li, F Haghighi, "Perl as a tool for linkage analysis",
American Journal of Human Genetics, supplement to vol 65,
page A260 (1999) (poster number 1452 at the
Annual Meeting of American Society of Human
Genetics 1999, San Francisco, CA)
