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The software tool PBEAM provides a parallel implementation of the BEAM, which is the first algorithm for large scale
epistatic interaction mapping, including genome-wide studies with hundreds of thousands of markers. BEAM describes
markers and their interactions with a Bayesian partitioning model and computes the posterior probability of each marker sets
via Markov Chain Monte Carlo (MCMC). PBEAM takes the advantage of simulating multiple Markov chains
simultaneously. This design can efficiently reduce ~n-fold execution time in the circumstance of n CPUs. The
implementation of PBEAM is based on MPI libraries.
Availability
PBEAM is available for download at http://bioinfo.au.tsinghua.edu.cn/pbeam/ 相似文献12.
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A Genomic Islands (GI) is a chunk of DNA sequence in a genome whose origin can be traced back to other organisms or viruses.
The detection of GIs plays an indispensable role in biomedical research, due to the fact that GIs are highly related to special
functionalities such as disease-causing GIs - pathogenicity islands. It is also very important to visualize genomic islands, as well as
the supporting features corresponding to the genomic islands in the genome. We have developed a program, Genomic Island
Visualization (GIV), which displays the locations of genomic islands in a genome, as well as the corresponding supportive feature
information for GIs. GIV was implemented in C++, and was compiled and executed on Linux/Unix operating systems.
Availability
GIV is freely available for non-commercial use at http://www5.esu.edu/cpsc/bioinfo/software/GIV 相似文献14.
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