MEtaData Format for Open Reef Data (MEDFORD)

Shpilker, Polina; Freeman, John; McKelvie, Hailey; Ashey, Jill; Fonticella, Jay-Miguel; Putnam, Hollie M.; Greenberg, Jane; Cowen, Lenore; Couch, Alva L.; Daniels, Noah M.

doi:10.1007/978-3-030-98876-0_18

Cited by 1 publication

(1 citation statement)

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“…While MEDFORD is capable of becoming a general-purpose metadata format, we are implementing the specific use case of coral data to both provide a proof of concept and aid the coral research community via a set of detailed metadata constructions specific to coral research. An extended abstract describing MEDFORD has previously appeared ( 15 ).…”

Section: Introductionmentioning

confidence: 99%

MEDFORD: A human- and machine-readable metadata markup language

et al. 2022

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Reproducibility of research is essential for science. However, in the way modern computational biology research is done, it is easy to lose track of small, but extremely critical, details. Key details, such as the specific version of a software used or iteration of a genome can easily be lost in the shuffle or perhaps not noted at all. Much work is being done on the database and storage side of things, ensuring that there exists a space-to-store experiment-specific details, but current mechanisms for recording details are cumbersome for scientists to use. We propose a new metadata description language, named MEtaData Format for Open Reef Data (MEDFORD), in which scientists can record all details relevant to their research. Being human-readable, easily editable and templatable, MEDFORD serves as a collection point for all notes that a researcher could find relevant to their research, be it for internal use or for future replication. MEDFORD has been applied to coral research, documenting research from RNA-seq analyses to photo collections.

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Section: Introductionmentioning

confidence: 99%