AIMC Topic: Programming Languages

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CPRS: a clinical protocol recommendation system based on LLMs.

International journal of medical informatics
BACKGROUND: As fundamental documents in clinical trials, clinical trial protocols are intended to ensure that trials are conducted according to the objectives set by researchers. The advent of large models with superior semantic performance compared ...

How Good (Or Bad) Are LLMs at Detecting Misleading Visualizations?

IEEE transactions on visualization and computer graphics
In this study, we address the growing issue of misleading charts, a prevalent problem that undermines the integrity of information dissemination. Misleading charts can distort the viewer's perception of data, leading to misinterpretations and decisio...

Large Language Models can Help with Biostatistics and Coding Needed in Radiology Research.

Academic radiology
INTRODUCTION: Original research in radiology often involves handling large datasets, data manipulation, statistical tests, and coding. Recent studies show that large language models (LLMs) can solve bioinformatics tasks, suggesting their potential in...

MolPipeline: A Python Package for Processing Molecules with RDKit in Scikit-learn.

Journal of chemical information and modeling
The open-source package scikit-learn provides various machine learning algorithms and data processing tools, including the Pipeline class, which allows users to prepend custom data transformation steps to the machine learning model. We introduce the ...

Language models for biological research: a primer.

Nature methods
Language models are playing an increasingly important role in many areas of artificial intelligence (AI) and computational biology. In this primer, we discuss the ways in which language models, both those based on natural language and those based on ...

Python tools for structural tasks in chemistry.

Molecular diversity
In recent decades, the use of computational approaches and artificial intelligence in the scientific environment has become more widespread. In this regard, the popular and versatile programming language Python has attracted considerable attention fr...

A systematic literature review on the applications of recurrent neural networks in code clone research.

PloS one
Code clones, referring to code fragments that are either similar or identical and are copied and pasted within software systems, have negative effects on both software quality and maintenance. The objective of this work is to systematically review an...

plotnineSeqSuite: a Python package for visualizing sequence data using ggplot2 style.

BMC genomics
BACKGROUND: The visual sequence logo has been a hot area in the development of bioinformatics tools. ggseqlogo written in R language has been the most popular API since it was published. With the popularity of artificial intelligence and deep learnin...

MZA: A Data Conversion Tool to Facilitate Software Development and Artificial Intelligence Research in Multidimensional Mass Spectrometry.

Journal of proteome research
Modern mass spectrometry-based workflows employing hybrid instrumentation and orthogonal separations collect multidimensional data, potentially allowing deeper understanding in omics studies through adoption of artificial intelligence methods. Howeve...

GapPredict - A Language Model for Resolving Gaps in Draft Genome Assemblies.

IEEE/ACM transactions on computational biology and bioinformatics
Short-read DNA sequencing instruments can yield over 10 bases per run, typically composed of reads 150 bases long. Despite this high throughput, de novo assembly algorithms have difficulty reconstructing contiguous genome sequences using short reads ...