Ellen M. Wijsman: Software and data
- For source code for the MORGAN package or Loki, see
The PANGAEA distribution site.
- lnkg2lmm: A Perl script to convert
linkage-style files to MORGAN-lm_markers-style files, also distributed from the
PANGAEA/MORGAN distribution site.
- Perl scripts for Loki:
additional useful scripts for manipulating files from Loki are provided
as-is. These are scripts that members of my group have written and that
carry out commonly-used tasks. These scripts include computation of
Bayes Factors for linkage by uniform intervals or by inter-marker
intervals (different from the L-score distributed with Loki); flipping
of QTL models to eliminate the model bimodality that is
intrinsic in the analysis approach; extracting QTL models that meet particular
conditions; and extracting QTL models that fall in an ellipse in a
heterozygote-homozygote effect scatter plot. See beginning of each perl
script for program documentation.
- SimSuite: A suite of Perl scripts to manage trait simulation from Loki
output files, marker simulation, and analysis of results with Loki and/or SOLAR,
described by Igo & Wijsman (2008) Empirical significance values for linkage
analysis: trait simulation using posterior model distributions from MCMC
oligogenic segregation analysis. Genetic Epidemiology 32:119-131.
Available very soon (approx Mar. 1, 2008).
- Simulated data used in the paper by Wijsman et al (2006) AJHG 79:846-858
is available at
the PANGAEA distribution site.
- Other programs are currently distributed informally, and in a state
that is "as is". Contact me if you are interested.
http://faculty.washington.edu/wijsman
Last updated:
Sunday, 02-Mar-2008 18:21:56 PST