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JATSdecoder  

A Metadata and Text Extraction and Manipulation Tool Set
View on CRAN: Click here


Download and install JATSdecoder package within the R console
Install from CRAN:
install.packages("JATSdecoder")

Install from Github:
library("remotes")
install_github("cran/JATSdecoder")

Install by package version:
library("remotes")
install_version("JATSdecoder", "1.2.2")



Attach the package and use:
library("JATSdecoder")
Maintained by
Ingmar Böschen
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2022-09-30
Latest Update: 2025-07-29
Description:
Provides a function collection to extract metadata, sectioned text and study characteristics from scientific articles in 'NISO-JATS' format. Articles in PDF format can be converted to 'NISO-JATS' with the 'Content ExtRactor and MINEr' ('CERMINE', ). For convenience, two functions bundle the extraction heuristics: JATSdecoder() converts 'NISO-JATS'-tagged XML files to a structured list with elements title, author, journal, history, 'DOI', abstract, sectioned text and reference list. study.character() extracts multiple study characteristics like number of included studies, statistical methods used, alpha error, power, statistical results, correction method for multiple testing, software used. An estimation of the involved sample size is performed based on reports within the abstract and the reported degrees of freedom within statistical results. In addition, the package contains some useful functions to process text (text2sentences(), text2num(), ngram(), strsplit2(), grep2()). See B
How to cite:
Ingmar Böschen (2022). JATSdecoder: A Metadata and Text Extraction and Manipulation Tool Set. R package version 1.2.2, https://cran.r-project.org/web/packages/JATSdecoder. Accessed 28 Aug. 2026.
Previous versions and publish date:
1.1.1 (2022-10-21 14:58), 1.1.2 (2023-02-27 20:42), 1.1 (2022-09-30 19:30), 1.2.0 (2023-10-12 14:50), 1.2.1 (2025-07-29 11:20), 1.2.2 (2026-01-08 01:20), 1.3.0 (2026-02-16 14:10), (2026-07-09 08:07)
Other packages that cited JATSdecoder R package
View JATSdecoder citation profile
Other R packages that JATSdecoder depends, imports, suggests or enhances
Complete documentation for JATSdecoder
Functions, R codes and Examples using the JATSdecoder R package
Some associated functions: JATSdecoder . allStats . est.ss . get.R.package . get.abstract . get.aff . get.alpha.error . get.assumptions . get.author . get.category . get.contrib . get.country . get.doi . get.editor . get.history . get.journal . get.keywords . get.method . get.multi.comparison . get.n.studies . get.outlier.def . get.power . get.references . get.sentence.with.pattern . get.sig.adjectives . get.software . get.stats . get.subject . get.tables . get.test.direction . get.text . get.title . get.type . get.vol . grep2 . has.interaction . letter.convert . ngram . preCheck . standardStats . strsplit2 . study.character . text2num . text2sentences . vectorize.text . which.term . 
Some associated R codes: JATS_get.abstract.R . JATS_get.aff.R . JATS_get.author.R . JATS_get.category.R . JATS_get.contrib.R . JATS_get.country.R . JATS_get.doi.R . JATS_get.editor.R . JATS_get.history.R . JATS_get.journal.R . JATS_get.keywords.R . JATS_get.references.R . JATS_get.subject.R . JATS_get.tables.R . JATS_get.text.R . JATS_get.title.R . JATS_get.type.R . JATS_get.vol.R . JATSdecoder.R . character_allStats.R . character_est.ss.R . character_get.R.package.R . character_get.alpha.error.R . character_get.assumption.R . character_get.method.R . character_get.multi.comparison.R . character_get.n.studies.R . character_get.outlier.def.R . character_get.power.R . character_get.sig.adjectives.R . character_get.software.R . character_get.stats.R . character_get.test.direction.R . character_has.interaction.R . character_standardStats.R . helper_get.sentence.with.pattern.R . helper_grep2.R . helper_letter.convert.R . helper_ngram.R . helper_preCheck.R . helper_strsplit2.R . helper_text2num.R . helper_text2sentences.R . helper_vectorize.text.R . helper_which.term.R . study.character.R .  Full JATSdecoder package functions and examples
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