multipoint runs

Alex Ext. 4983 - Medicine NECHIPORUK at CSMC.EDU
Wed Jun 14 13:20:32 EST 1995


I want to thank  everybody who posted answers on my yesterday question 
about multipoint runs.  
I realized that I did not give enough information.  
Below is the output for two runs.  Markers (7, 12, 10, and 11) are spaced at 
the following distances: 7 - 2.3cM - 12 - 6.8cM - 10 - 6.4cM - 11.  All runs 
were performed on SUN with 64K memory using LINKAGE.  It took us about 
one week to do each run, we have three large families (total of about 350 
individuals) which are very incomplete 
with first two-three generations missing.  We tried running all four
markers at once with four alleles in each, but it could not handle the run.
Very often in publications I see multipoint graphs with 5,6 evev more 
markers on one single curve.  Even with two alleles for each markers
I do non think it would be possible to run so many markers at once.  That's
why I had my question about combining or scaling a couple runs together.
Someone suggested to hyplotype two proximal (distal) markers, but we have 
multiple crossovers between those markers in the pedigree, how would I deal
with that?
Thanks everybody,
Alex Nechiporuk, Cedars Sinai Medical Center, Los Angeles.





                   L O C A T I O N   S C O R E   R E P O R T
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                          Report Title :

                          Report File  : report.txt

                          Report Date  :  6-Oct-116  07:48:21



                          Stream File  : c:\al\linkage\stream2.out

                          Stream Date  : 18-Jun-117  13:30:49

                   L O C A T I O N   S C O R E   R E P O R T          Page: 2

Order                Loc. Score     -2LN Like       Odds
--------------------------------------------------------
1====7----12----10
 .500 .023  .068           0.00    +1.741E+03    4.5E+13
 .400 .023  .068          13.50    +1.727E+03    5.2E+10
 .300 .023  .068          27.00    +1.714E+03    6.1E+07
 .200 .023  .068          36.94    +1.704E+03    4.3E+05
 .100 .023  .068          40.75    +1.700E+03    6.3E+04
 .000 .023  .068         -34.80    +1.776E+03    1.6E+21

7====1====12----10
 .000 .023  .068         -34.80    +1.776E+03    1.6E+21
 .005 .019  .068          11.95    +1.729E+03    1.1E+11
 .009 .014  .068          17.57    +1.723E+03    6.8E+09
 .014 .009  .068          18.75    +1.722E+03    3.8E+09
 .018 .005  .068          15.69    +1.725E+03    1.7E+10
 .023 .000  .068         -53.58    +1.794E+03    1.9E+25

7----12====1====10
 .023  .000 .068         -53.58    +1.794E+03    1.9E+25
 .023  .014 .056          54.41    +1.686E+03    6.8E+01
 .023  .027 .043          60.35    +1.680E+03    3.5E+00
 .023  .041 .030          62.78    +1.678E+03    1.0E+00
 .023  .054 .015          62.86    +1.678E+03    1.0E+00 <==
 .023  .068 .000          32.76    +1.708E+03    3.4E+06

7----12----10====1
 .023  .068  .000         32.76    +1.708E+03    3.4E+06
 .023  .068  .100         51.99    +1.689E+03    2.3E+02
 .023  .068  .200         40.49    +1.700E+03    7.2E+04
 .023  .068  .300         27.69    +1.713E+03    4.3E+07
 .023  .068  .400         13.34    +1.727E+03    5.7E+10
 .023  .068  .500          0.00    +1.741E+03    4.5E+13


1====12----10----11
 .500  .068  .064          0.00    +1.804E+03    4.5E+13
 .400  .068  .064         11.13    +1.793E+03    1.7E+11
 .300  .068  .064         24.66    +1.779E+03    2.0E+08
 .200  .068  .064         36.82    +1.767E+03    4.5E+05
 .100  .068  .064         45.19    +1.759E+03    6.9E+03
 .000  .068  .064        -56.38    +1.860E+03    7.8E+25

12====1====10----11
  .000 .068  .064        -56.38    +1.860E+03    7.8E+25
  .014 .056  .064         57.02    +1.747E+03    1.9E+01
  .027 .043  .064         61.67    +1.742E+03    1.8E+00
  .041 .030  .064         62.87    +1.741E+03    1.0E+00 <==
  .054 .015  .064         61.56    +1.743E+03    1.9E+00
  .068 .000  .064         25.14    +1.779E+03    1.6E+08

12----10====1====11
  .068  .000 .064         25.15    +1.779E+03    1.6E+08
  .068  .013 .053         49.67    +1.754E+03    7.4E+02
  .068  .026 .040         47.22    +1.757E+03    2.5E+03
  .068  .038 .028         42.26    +1.762E+03    3.0E+04

                   L O C A T I O N   S C O R E   R E P O R T          Page: 3

Order                Loc. Score     -2LN Like       Odds
--------------------------------------------------------
  .068  .051 .014         32.83    +1.771E+03    3.3E+06
  .068  .064 .000        -86.12    +1.890E+03    2.3E+32

12----10----11====1
  .068  .064  .000       -86.12    +1.890E+03    2.3E+32
  .068  .064  .100        31.03    +1.773E+03    8.2E+06
  .068  .064  .200        28.61    +1.775E+03    2.8E+07
  .068  .064  .300        20.50    +1.784E+03    1.6E+09
  .068  .064  .400         9.91    +1.794E+03    3.2E+11
  .068  .064  .500         0.00    +1.804E+03    4.5E+13




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