Title

MethodsJ2: a software tool to capture metadata and generate comprehensive microscopy methods text

UMMS Affiliation

Program in Molecular Medicine

Publication Date

2021-10-15

Document Type

Article

Disciplines

Biochemistry, Biophysics, and Structural Biology | Bioimaging and Biomedical Optics | Computer Sciences | Laboratory and Basic Science Research | Optics

Abstract

roper reporting of metadata is essential to reproduce microscopy experiments, interpret results and share images. The lack of methods reporting in microscopy is evident in that few research articles pass a test for the minimal information required to reproduce experiments (about 17% of 240 articles containing 1,500 figures with images). The problem is compounded by the number and variety of microscope modalities, options and associated components. Automation has distanced researchers from the technical parameters, so it can be difficult for them to know what information needs to be reported. MethodsJ2 is an ImageJ/Fiji-based software tool that aims to improve reproducibility in microscopy by capturing image metadata from multiple sources, consolidating it and automatically generating methods text for publication.

Keywords

Imaging, Microscopy, Research data

DOI of Published Version

10.1038/s41592-021-01290-5

Source

Ryan J, Pengo T, Rigano A, Llopis PM, Itano MS, Cameron LA, Marqués G, Strambio-De-Castillia C, Sanders MA, Brown CM. MethodsJ2: a software tool to capture metadata and generate comprehensive microscopy methods text. Nat Methods. 2021 Oct 15. doi: 10.1038/s41592-021-01290-5. Epub ahead of print. PMID: 34654919. Link to article on publisher's site

Journal/Book/Conference Title

Nature methods

Related Resources

Link to Article in PubMed

PubMed ID

34654919

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