AIMC Topic: Software

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Identify and monitor clinical variation using machine intelligence: a pilot in colorectal surgery.

Journal of clinical monitoring and computing
Standardized clinical pathways are useful tool to reduce variation in clinical management and may improve quality of care. However the evidence supporting a specific clinical pathway for a patient or patient population is often imperfect limiting ado...

A universal SNP and small-indel variant caller using deep neural networks.

Nature biotechnology
Despite rapid advances in sequencing technologies, accurately calling genetic variants present in an individual genome from billions of short, errorful sequence reads remains challenging. Here we show that a deep convolutional neural network can call...

Evaluation of Commonly Used Algorithms for Thyroid Ultrasound Images Segmentation and Improvement Using Machine Learning Approaches.

Journal of healthcare engineering
The thyroid is one of the largest endocrine glands in the human body, which is involved in several body mechanisms like controlling protein synthesis and the body's sensitivity to other hormones and use of energy sources. Hence, it is of prime import...

Increasing workflow development speed and reproducibility with Vectools.

F1000Research
Despite advances in bioinformatics, custom scripts remain a source of difficulty, slowing workflow development and hampering reproducibility. Here, we introduce Vectools, a command-line tool-suite to reduce reliance on custom scripts and improve repr...

Factorization machines and deep views-based co-training for improving answer quality prediction in online health expert question-answering services.

Journal of biomedical informatics
In online health expert question-answering (HQA) services, it is significant to automatically determine the quality of the answers. There are two prominent challenges in this task. First, the answers are usually written in short text, which makes it ...

Abstract concept learning in a simple neural network inspired by the insect brain.

PLoS computational biology
The capacity to learn abstract concepts such as 'sameness' and 'difference' is considered a higher-order cognitive function, typically thought to be dependent on top-down neocortical processing. It is therefore surprising that honey bees apparantly h...

CGPS: A machine learning-based approach integrating multiple gene set analysis tools for better prioritization of biologically relevant pathways.

Journal of genetics and genomics = Yi chuan xue bao
Gene set enrichment (GSE) analyses play an important role in the interpretation of large-scale transcriptome datasets. Multiple GSE tools can be integrated into a single method as obtaining optimal results is challenging due to the plethora of GSE to...

Pheno-Deep Counter: a unified and versatile deep learning architecture for leaf counting.

The Plant journal : for cell and molecular biology
Direct observation of morphological plant traits is tedious and a bottleneck for high-throughput phenotyping. Hence, interest in image-based analysis is increasing, with the requirement for software that can reliably extract plant traits, such as lea...