Using interactive Jupyter Notebooks and BioConda for FAIR and reproducible biomolecular simulation workflows
… An exhaustive list of available workflows and where they can be found is given in Table A in
… The notebook reproduces the workflow integrated into the FlexServ web-based tool for the …
… The notebook reproduces the workflow integrated into the FlexServ web-based tool for the …
Sentinel-2 satellite-based analysis of bark beetle damage in Sopron Mountains, Hungary
T Molnár, G Király - Acta Geographica Debrecina Landscape & …, 2023 - ojs.lib.unideb.hu
Sopron mountains were affected by bark beetle (Ips typographus) damage between 2017
and 2020, which was surveyed on high-resolution ESA Sentinel-2 satellite images for the …
and 2020, which was surveyed on high-resolution ESA Sentinel-2 satellite images for the …
Planutils: Bringing planning to the masses
… is, however, currently hosted on personal or lab spaces online, with tools often requiring a
non-… Anaconda Software Distribution. https://docs.anaconda.com/. Benton, J.; Coles, A.; and …
non-… Anaconda Software Distribution. https://docs.anaconda.com/. Benton, J.; Coles, A.; and …
Artifact: Codesign of Edge Intelligence and Automated Guided Vehicle Control
This is the replication package for the paper, Code-sign of Edge Intelligence and autonomous
guided vehicle (AGV) Control, which is published at the International Conference on …
guided vehicle (AGV) Control, which is published at the International Conference on …
Restoring execution environments of Jupyter notebooks
More than ninety percent of published Jupyternotebooks do not state dependencies on external
packages. This makes them non-executable and thus hinders reproducibility of scientific …
packages. This makes them non-executable and thus hinders reproducibility of scientific …
MLHCBugs: A Framework to Reproduce Real Faults in Healthcare Machine Learning Applications
Machine Learning (ML) is the field of study that allows computers to learn from experiences
without being explicitly programmed [1]. ML models are currently used in many safety-critical …
without being explicitly programmed [1]. ML models are currently used in many safety-critical …
Learned embeddings from deep learning to visualize and predict protein sets
Abstract Models from machine learning (ML) or artificial intelligence (AI) increasingly assist
in guiding experimental design and decision making in molecular biology and medicine. …
in guiding experimental design and decision making in molecular biology and medicine. …
A brief survey of tools for genomic regions enrichment analysis
Functional enrichment analysis or pathway enrichment analysis (PEA) is a bioinformatics
technique which identifies the most over-represented biological pathways in a list of genes …
technique which identifies the most over-represented biological pathways in a list of genes …
Ten quick tips for building FAIR workflows
C de Visser, LF Johansson, P Kulkarni… - PLoS Computational …, 2023 - journals.plos.org
Research data is accumulating rapidly and with it the challenge of fully reproducible science.
As a consequence, implementation of high-quality management of scientific data has …
As a consequence, implementation of high-quality management of scientific data has …
MEGARes and AMR++, v3. 0: an updated comprehensive database of antimicrobial resistance determinants and an improved software pipeline for classification using …
N Bonin, E Doster, H Worley, LJ Pinnell… - Nucleic acids …, 2023 - academic.oup.com
Antimicrobial resistance (AMR) is considered a critical threat to public health, and genomic/metagenomic
investigations featuring high-throughput analysis of sequence data are …
investigations featuring high-throughput analysis of sequence data are …