AIMC Topic: Software

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OrganoidTracker: Efficient cell tracking using machine learning and manual error correction.

PloS one
Time-lapse microscopy is routinely used to follow cells within organoids, allowing direct study of division and differentiation patterns. There is an increasing interest in cell tracking in organoids, which makes it possible to study their growth and...

MetaClean: a machine learning-based classifier for reduced false positive peak detection in untargeted LC-MS metabolomics data.

Metabolomics : Official journal of the Metabolomic Society
INTRODUCTION: Despite the availability of several pre-processing software, poor peak integration remains a prevalent problem in untargeted metabolomics data generated using liquid chromatography high-resolution mass spectrometry (LC-MS). As a result,...

Regulatory Frameworks for Development and Evaluation of Artificial Intelligence-Based Diagnostic Imaging Algorithms: Summary and Recommendations.

Journal of the American College of Radiology : JACR
Although artificial intelligence (AI)-based algorithms for diagnosis hold promise for improving care, their safety and effectiveness must be ensured to facilitate wide adoption. Several recently proposed regulatory frameworks provide a solid foundati...

Deep learning-assisted comparative analysis of animal trajectories with DeepHL.

Nature communications
A comparative analysis of animal behavior (e.g., male vs. female groups) has been widely used to elucidate behavior specific to one group since pre-Darwinian times. However, big data generated by new sensing technologies, e.g., GPS, makes it difficul...

PyHIST: A Histological Image Segmentation Tool.

PLoS computational biology
The development of increasingly sophisticated methods to acquire high-resolution images has led to the generation of large collections of biomedical imaging data, including images of tissues and organs. Many of the current machine learning methods th...

Implementing logical inference based on DNA assembly.

Bio Systems
Algorithms and information processing, fundamental to biological system, are an essential aspect of many elementary physical phenomena, such as molecular self-assembly. Self-assembly system has been proved to be capable of performing many logic opera...

Guiding Conventional Protein-Ligand Docking Software with Convolutional Neural Networks.

Journal of chemical information and modeling
The high-performance computational techniques have brought significant benefits for drug discovery efforts in recent decades. One of the most challenging problems in drug discovery is the protein-ligand binding pose prediction. To predict the most st...

Computational planning of the synthesis of complex natural products.

Nature
Training algorithms to computationally plan multistep organic syntheses has been a challenge for more than 50 years. However, the field has progressed greatly since the development of early programs such as LHASA, for which reaction choices at each s...