PUMA pipeline output

Output of the PUMA (PUblications Metadata Augmentation) software pipeline which takes a list of journal articles and augments it with metadata from external sources. This augmented metadata is then processed to generate data files and an explorable/searchable set of HTML pages.

The PUMA pipeline is available at: https://github.com/OllyButters/puma and is described at: https://doi.org/10.12688/f1000research.25484.1

These attached files are the result of running the pipeline on the list of publications described at: https://doi.org/10.12688/wellcomeopenres.14986.1 on 2021-01-15. Rerunning the pipeline on this list may result in slightly different outputs due to the changing content of the external metadata sources.

Screenshots of the output HTML pages:

PUMA_home_2021-01-15.png   - Summary of all publications.

PUMA_2011_2021-01-15.png   - All publications from 2011.

PUMA_map_2021-01-15.png   - Choropleth map of first author's country.

PUMA_asthma_2021-01-15.png   - All publications with an asthma MeSH.

PUMA_metrics_2021-01-15.png   - Simple metrics.

PUMA_word_cloud_2021-01-15.png   - Word cloud of abstract text.

PUMA_coverage_2021-01-15.png   - Table showing completeness of metadata.

Generated data files

authors.csv   - Frequency of authors.

first_authors.csv   - Frequency of first authors.

first_authors_inst.csv   - Frequency of first authors' institutes.

journals.csv   - Frequency of journals published in.

abstract_lemmatized.csv   - Frequency of lemmatized abstract words.

abstract_lemmatized_by_year.csv   - Frequency of lemmatized abstract words broken down by year.

title_lemmatized.csv   - Frequency of lemmatized title words.

title_lemmatized_by_year.csv   - Frequency of lemmatized title words broken down by year.

keywords_lemmatized.csv   - Frequency of lemmatized keywords.

keywords_lemmatized_by_year.csv   - Frequency of lemmatized keywords broken down by year.