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Baycis : a generalized, hierarchical HMM for transcription
factor binding site discovery in Metazoan genomes
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CSMET : a multi-resolution mixture of evolutionary tree
approach to transcription factor binding site detection for aligned genomes in eukaryotes
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DISCOVER : a discriminative, conditional random field model for
factor binding site discovery in Metazoan genomes
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IMM-PGE : IMM-PGE focuses on the development of
accurate and automatic image analysis systems to facilitate efficient mining of complex
temporal-spatial mRNA patterns, essential for functional genomics and
regulatory network inference in higher organisms.
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mStruct : A New Admixture Model for Inference of Population
Structure in Light of Both Genetic Admixing and Allele Mutations
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N/w modelling : Developing new statistical formalisms
and computational methodologies for modeling and inference the semantic underpinnings
of network entities, and investigating how these aspects influence the network topology
and its temporal evolution during biological and sociological processes. It also studies
a number of yet unexplored topics such as discriminative learning of network structures,
recovering temporally evolving network sequences, and related theoretical issues.
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SPECTRUM : SPECTRUM is a program for jointly
inferring population structure and recombination events using multi-locus SNP
haplotypes.
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KELLER : A kernel-reweighted logistic regression method (KELLER) for reverse engineering the dynamic interactions between genes based on their time series of expression values.
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TESLA:TESLA is software for estimating time-varying network from time-series of nodal attributes using the l1-regularized total-variation penality. It is appropriate for estimating the structure of networks with sharp structual changes.
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| GFlasso : A regularized-regression method for discovering genotypes (inputs) influencing multiple correlated traits (outputs) in an association analysis of a quantitative trait network.
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| Haploi : A haplotype inference program for multi-population data.
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