CSI (confidence set inference) uses affected sib pairs data and relative risks to construct a confidence set of markers within a prespecified genetic distance from the disease locus.
MSTMap is a software tool that is capable of constructing genetic linkage maps efficiently and accurately. It can handle various mapping populations including BC1, DH, Hap, and RIL, among others. The tool builds the genetic linkage map by first constructing a Minimum Spanning Tree (MST), and hence the name MSTMap. The algorithm implemented in MSTMap is very efficient and can handle ultra-dense maps of up to 10,000~100,000 markers. According to our experimental studies, when the data quality is high, the accuracies of the maps produced by our tool are as good as those by the best tools available in the literature. However, when the data are noisy, the maps generated by our algorithm are significantly better.
MergeMap is a software tool that is capable of constructing accurate consensus genetic maps from a set of individual genetic maps. The input to MergeMap, a set of individual maps, are first converted to DAGs internally, which are then merged into a consensus graph on the basis of shared vertices. Conflicts among the individual maps will be shown as cycles in the consensus graph. MergeMap tries to resovle conflicts by deleting a minimum set of marker occurrences. The details about the conflicts as well the decision by MergeMap are shown to the user graphically. The result of this conflict-resolution step is a consensus DAG, which will be simplified and then linearized to produce the final consensus map.
ConStruct (construction of RNA consensus structures) is an RNA alignment editor and consensus structure prediction tool. It combines multiple sequence alignment, thermodynamic structure prediction and statistics in a semiautomatical fashion. Its sophisticated GUI guides the user through correcting an initial sequence alignment with respect to a consensus structure.
::DEVELOPER
Gerhard Steger <steger@biophys.uni-duesseldorf.de>,Heinrich-Heine-Universität Düsseldorf, Institut für Physikalische Biologie, Universitätsstr