MQLS ("More Poweful" or "Modified" Quasi-likelihood Score Test) Changelog


Version 1.1 (8/01/07)
=======================
- Initial Release


Version 1.2 (3/20/08)
=======================
Daniel E. Weeks (weeks@pitt.edu) 

-- Corrected memory allocation so that MQLS should not 
as easily run out of memory when analyzing datasets with a large number of 
people.

-- Improved the handling of files with too many markers: It now prints an
error message and exits if the maximum number of markers (MAXMARK) has
not been set large enough.

Temporary fix (6/16/08)
=========
Mary Sara McPeek

-- In MQLS.c, changed printing of p-values so that they will be in either 
scientific or floating point notation, whichever is shorter.  This is 
intended to eliminate the problem of very small p-values being reported 
as .000000 in floating point notation.  Have not updated the executable
MQLStest.

Version 1.3 (2/23/09)
====================
Mary Sara McPeek

a) Fixed another memory allocation problem.

b) Changed printing of p-values to sigfile (in addition to outfile)
so that they will be in either scientific or floating point notation, 
whichever is shorter. 

c) Changed the way MZ twins are identified.


 
Version 1.4 (9/23/09)
====================

Timothy Thornton

a) Fixed a problem that previouly crashed the program when there are 
no members of a family with available genotyped data at a SNP.


Mark Kvale (kvalem@humgen.ucsf.edu)

a) Fixed memory allocation problem where family struct is now allocated 
only once for each family instead of for every marker

b) Fixed memory allocation problem where memory is now deallocated for 
the temporary matrices in the makeFreqMat subroutine



Version 1.5 (3/14/11)
====================

Timothy Thornton

a) All three association statistics are now calculated using the variance
estimator of Equation (3) of Thornton and McPeek (2010), which is a robust 
variance estimator that relaxes the Hardy-Weinberg Equilibrium (HWE) 
assumption under the null hypothesis.  The previous versions of the MQLS 
software were calculated using a variance estimator that assumes HWE in 
the founders.  

b) Modified the software to print the p-values for every SNP to a file 
named "MQLStest.pvalues" 

c) Changed the way MZ twins are identified by also confirming that 
pairwise kinship coefficient value for twins equals the self-kinship 
coefficient values.  Also corrected an error in the MZ twin subroutine.