FLOSS: flexible ordered subset analysis for linkage mapping of complex traits
Open Access
- 20 December 2005
- journal article
- research article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 22 (4) , 512-513
- https://doi.org/10.1093/bioinformatics/btk012
Abstract
Summary: The FLOSS software package is a flexible framework for ordered subset analysis. FLOSS is specifically designed for use with the Merlin linkage analysis package, but FLOSS can be used with any linkage analysis software package that reports NPL Z-scores for each locus and family. When FLOSS is used with the Merlin linkage analysis package, one can use either non-parametric Z-scores or Kong and Cox linear allele sharing model LOD scores. Monte Carlo P-values are calculated using a permutation test with an efficient Besag–Clifford sequential stopping rule. FLOSS also has a flexible tool for assigning family covariate scores from Merlin input files. FLOSS includes user documentation and is written in Java for easy portability. The FLOSS source code is documented and designed to be extensible. Availability: Contact:brian_browning1@yahoo.comKeywords
This publication has 4 references indexed in Scilit:
- Ordered subset analysis in genetic linkage mapping of complex traitsGenetic Epidemiology, 2004
- Merlin—rapid analysis of dense genetic maps using sparse gene flow treesNature Genetics, 2001
- Allele-Sharing Models: LOD Scores and Accurate Linkage TestsAmerican Journal of Human Genetics, 1997
- Sequential Monte Carlo p-valuesBiometrika, 1991