An approachable, flexible and practical machine learning workshop for biologists.

SUMMARY: The increasing prevalence and importance of machine learning in biological research have created a need for machine learning training resources tailored towards biological researchers. However, existing resources are often inaccessible, infeasible or inappropriate for biologists because they require significant computational and mathematical knowledge, demand an unrealistic time-investment or teach skills primarily for computational researchers. We created the Machine Learning for Biologists (ML4Bio) workshop, a short, intensive workshop that empowers biological researchers to comprehend machine learning applications and pursue machine learning collaborations in their own research. The ML4Bio workshop focuses on classification and was designed around three principles: (i) emphasizing preparedness over fluency or expertise, (ii) necessitating minimal coding and mathematical background and (iii) requiring low time investment. It incorporates active learning methods and custom open-source software that allows participants to explore machine learning workflows. After multiple sessions to improve workshop design, we performed a study on three workshop sessions. Despite some confusion around identifying subtle methodological flaws in machine learning workflows, participants generally reported that the workshop met their goals, provided them with valuable skills and knowledge and greatly increased their beliefs that they could engage in research that uses machine learning. ML4Bio is an educational tool for biological researchers, and its creation and evaluation provide valuable insight into tailoring educational resources for active researchers in different domains. AVAILABILITY AND IMPLEMENTATION: Workshop materials are available at https://github.com/carpentries-incubator/ml4bio-workshop and the ml4bio software is available at https://github.com/gitter-lab/ml4bio. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Cognitive processing differences of experts and novices when correlating anatomy and cross-sectional imaging.

The ability to correlate anatomical knowledge and medical imaging is crucial to radiology and as such, should be a critical component of medical education. However, we are hindered in our ability to teach this skill because we know very little about what expert practice looks like, and even less about novices' understanding. Using a unique simulation tool, this research conducted cognitive clinical interviews with experts and novices to explore differences in how they engage in this correlation and the underlying cognitive processes involved in doing so. This research supported what has been known in the literature, that experts are significantly faster at making decisions on medical imaging than novices. It also offers insight into the spatial ability and reasoning that is involved in the correlation of anatomy to medical imaging. There are differences in the cognitive processing of experts and novices with respect to meaningful patterns, organized content knowledge, and the flexibility of retrieval. Presented are some novice-expert similarities and differences in image processing. This study investigated extremes, opening an opportunity to investigate the sequential knowledge acquisition from student to resident to expert, and where educators can help intervene in this learning process.