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A variety of academic journals publishing manuscripts on biology and medicine include topics in text mining and natural language processing software. Some journals, including the Journal of the American Medical Informatics Association (JAMIA) and the Journal of Biomedical Informatics are popular publications for these topics.
Extensive data warehouse system for the analysis and integration of biological datasets written in Java and JavaScript Cross-platform: LGPL: University of Cambridge: LabKey Server: Software platform, allows organizations to integrate, analyze, and share complex biomedical data Linux, macOS, Windows: Apache: LabKey Software Foundation LAMMPS
Recently, similar methodology has been developed to mine large collections of electronic health records for temporal patterns associating drug prescriptions to medical diagnoses. [23] Data mining has been applied to software artifacts within the realm of software engineering: Mining Software Repositories.
The use of Clinical Data Repositories could provide a wealth of knowledge about patients, their medical conditions, and their outcome. The database could serve as a way to study the relationship and potential patterns between disease progression and management. The term "Medical Data Mining" has been coined for this method of research.
Galaxy is a web platform for data-intensive biology using geographically-distributed supercomputers. [56] LabKey Server is an extensible platform for integrating, analyzing and sharing all types of biomedical research data. It provides secure, web-based access to research data and includes a customizable data processing pipeline.
Orange, a data mining, machine learning, and bioinformatics software; Pandas – High-performance computing (HPC) data structures and data analysis tools for Python in Python and Cython (statsmodels, scikit-learn) Perl Data Language – Scientific computing with Perl; Ploticus – software for generating a variety of graphs from raw data
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