ALOHOMORA: a tool for linkage analysis using 10K SNP array data.
CONCLUSIONS
ALOHOMORA is a software tool designed to facilitate genome-wide linkage studies performed with high-density single nucleotide polymorphism (SNP) marker panels such as the Affymetrix GeneChip(R) Human Mapping 10K Array. Genotype data are converted into appropriate formats for a number of common linkage programs and subjected to standard quality control routines before linkage runs are started. ALOHOMORA is written in Perl and may be used to perform state-of-the-art linkage scans in small and large families with any genetic model. Options for using different genetic maps or ethnicity-specific allele frequencies are implemented. Graphic outputs of whole-genome multipoint LOD score values are provided for the entire dataset as well as for individual families.


BACKGROUND
ALOHOMORA is available free of charge for non-commercial research institutions. For more details, see http://gmc.mdc-berlin.de/alohomora/
Rüschendorf
Franz
F
Bioinformatics Department, Gene Mapping Center, Max Delbrück Center (MDC) for Molecular Medicine Berlin-Buch, Germany. fruesch@mdc-berlin.de
Nürnberg
Peter
P
D000465:Algorithms; D002874:Chromosome Mapping / Q000379:methods*; D003196:Computer Graphics; D004252:DNA Mutational Analysis / Q000379:methods*; D005787:Gene Frequency; D005828:Genetics, Population / Q000379:methods; D006801:Humans; D015810:Linkage Disequilibrium / Q000235:genetics*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D012984:Software; D014584:User-Computer Interface