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correspondence line built using the PyCogent toolkit 6 , to address the problem of taking sequencing data from raw sequences to interpretation and database deposition. QIIME, available at http://qiime.sourceforge. net/, supports a wide range of microbial community analyses and visualizations that have been central to several recent high-profile studies,(More)
BACKGROUND As microbial ecologists take advantage of high-throughput sequencing technologies to describe microbial communities across ever-increasing numbers of samples, new analysis tools are required to relate the distribution of microbes among larger numbers of communities, and to use increasingly rich and standards-compliant metadata to understand the(More)
MOTIVATION Microbial community profiling is a highly active area of research, but tools that facilitate visualization of phylogenetic trees and associated environmental data have not kept up with the increasing quantity of data generated in these studies. RESULTS TopiaryExplorer supports the visualization of very large phylogenetic trees, including(More)
Predicting RNA 3D structure from sequence is a major challenge in biophysics. An important sub-goal is accurately identifying recurrent 3D motifs from RNA internal and hairpin loop sequences extracted from secondary structure (2D) diagrams. We have developed and validated new probabilistic models for 3D motif sequences based on hybrid Stochastic(More)
The ability to construct domain specific knowledge graphs (KG) and perform question-answering or hypothesis generation is a trans-formative capability. Despite their value, automated construction of knowledge graphs remains an expensive technical challenge that is beyond the reach for most enterprises and academic institutions. We propose an end-to-end(More)
Social media can provide a resource for characterizing communities and small populations through activities and content shared online. For instance, studying the language use in social media within military populations may provide insights into their health and well-being. In this paper, we address three research questions: (1) How do military populations(More)
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