AIMC Topic: Software

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Revisit of Machine Learning Supported Biological and Biomedical Studies.

Methods in molecular biology (Clifton, N.J.)
Generally, machine learning includes many in silico methods to transform the principles underlying natural phenomenon to human understanding information, which aim to save human labor, to assist human judge, and to create human knowledge. It should h...

Speech2Health: A Mobile Framework for Monitoring Dietary Composition From Spoken Data.

IEEE journal of biomedical and health informatics
Diet and physical activity are known as important lifestyle factors in self-management and prevention of many chronic diseases. Mobile sensors such as accelerometers have been used to measure physical activity or detect eating time. In many intervent...

SIMLR: A Tool for Large-Scale Genomic Analyses by Multi-Kernel Learning.

Proteomics
SIMLR (Single-cell Interpretation via Multi-kernel LeaRning), an open-source tool that implements a novel framework to learn a sample-to-sample similarity measure from expression data observed for heterogenous samples, is presented here. SIMLR can be...

A heuristic method for simulating open-data of arbitrary complexity that can be used to compare and evaluate machine learning methods.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
A central challenge of developing and evaluating artificial intelligence and machine learning methods for regression and classification is access to data that illuminates the strengths and weaknesses of different methods. Open data plays an important...

Integrative Analysis of Proteomics Data to Obtain Clinically Relevant Markers.

Methods in molecular biology (Clifton, N.J.)
The analysis of proteomics data can be significantly challenging. Beyond the technical challenges of accurately identifying and quantifying peptides, identifying the most biologically coherent set of biomarkers can be a particularly daunting step. In...

Quality Control for High-Throughput Imaging Experiments Using Machine Learning in Cellprofiler.

Methods in molecular biology (Clifton, N.J.)
Robust high-content screening of visual cellular phenotypes has been enabled by automated microscopy and quantitative image analysis. The identification and removal of common image-based aberrations is critical to the screening workflow. Out-of-focus...

NLPReViz: an interactive tool for natural language processing on clinical text.

Journal of the American Medical Informatics Association : JAMIA
The gap between domain experts and natural language processing expertise is a barrier to extracting understanding from clinical text. We describe a prototype tool for interactive review and revision of natural language processing models of binary con...

SPICODYN: A Toolbox for the Analysis of Neuronal Network Dynamics and Connectivity from Multi-Site Spike Signal Recordings.

Neuroinformatics
We implemented an automated and efficient open-source software for the analysis of multi-site neuronal spike signals. The software package, named SPICODYN, has been developed as a standalone windows GUI application, using C# programming language with...