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Software

These tools/code are available for noncommercial use free of charge. Other usage should contact Dr. Li (jingli@case.edu). All right are reserved. 

PedPhase is an implementation of our haplotype inference algorithms for pedigree data. It tries to find a haplotype configuration with minimum number of recombinant, which is different from Ped_IBD. 


Ped_IBD is a program for recombination breakpoint identification, IBD inference and haplotype inference from pedigrees with many untyped members. It utilizes a HHM. MML is a program for haplotype inference by joint analysis of pedigree and population data. 


MAVEN is an online tool for visualization and functional analysis of genome-wide association results.

 

HapMiner is an implementation of our haplotype-based association mapping method for case-control data. 

 

GS is a computer program for generating samples for association studies.

 

DIR is an online tool for candidate disease gene prioritization.

 

SVMiner is a structure variation detection tool. 

 

VIP is a SNP variant detection tool from pooled DNAs. 

 

DTECD is a decision tree-based SNP interaction detection tool.


Bellerophon is a program for detecting large scale genome rearrangements.

Subpages (2): Haplotyping HapMiner