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update affiliation
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jats/paper.jats

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@@ -76,13 +76,18 @@ search queries</article-title>
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<surname>Wagner</surname>
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<given-names>Gerit</given-names>
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</name>
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<xref ref-type="aff" rid="aff-1"/>
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<xref ref-type="aff" rid="aff-2"/>
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</contrib>
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<aff id="aff-1">
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<institution-wrap>
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<institution>Otto-Friedrich Universität Bamberg</institution>
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</institution-wrap>
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</aff>
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<aff id="aff-2">
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<institution-wrap>
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<institution>Frankfurt School of Finance &amp; Management</institution>
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</institution-wrap>
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</aff>
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</contrib-group>
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<pub-date date-type="pub" publication-format="electronic" iso-8601-date="2024-05-20">
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<day>20</day>

paper.md

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@@ -26,11 +26,13 @@ authors:
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affiliation: 1
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orcid: "0009-0000-5716-5816"
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- name: Gerit Wagner
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affiliation: 1
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affiliation: 2
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orcid: "0000-0003-3926-7717"
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affiliations:
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- name: Otto-Friedrich Universität Bamberg
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index: 1
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- name: Frankfurt School of Finance & Management
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index: 2
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date: "2024-05-20"
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bibliography: paper.bib
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header-includes: |
@@ -49,15 +51,15 @@ Unlike existing proprietary and web-based software, *search-query* offers progra
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Keywords: Python, search query, literature search, literature review, meta-analysis.
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<!--
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<!--
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- entry: enter queries from cli/programmatically
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- manipulation: change query elements programmatically
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- parsing: parse query (tree) object from different input formats
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- formatting (translation): generate query strings in different syntax from query object
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- analysis: retrieval size per sub-tree (Theis), syntactic analysis of contradiction
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- simplification:
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- Stemming and Lemmatization: Reduce words to their root forms to capture all variants (e.g., "running" to "run")., Wildcards: Use symbols (e.g., ?, #) within words to replace a single character (e.g., "wom?n" retrieves "woman" and "women"), Truncation: Use a symbol (usually ) to replace one or more characters at the end of a word (e.g., "comput" retrieves "computer," "computing").
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- Combining terms: combining terms in queries like "run AND running" (absorption law), using wildcards to combine terms (if they have the same search-fields).
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- Combining terms: combining terms in queries like "run AND running" (absorption law), using wildcards to combine terms (if they have the same search-fields).
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- Redundant Nesting: Remove unnecessary parentheses to simplify the query structure (associative property), remove unnecessary parentheses
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-refinement (TBD): expansion based on synonyms and thesaurus terms
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- Synonym Expansion: Use a thesaurus or controlled vocabulary (like MeSH for medical terms) to expand queries with synonyms or related terms (see synonym-expansion-mesh.py)
@@ -294,7 +296,7 @@ instead, guidance can be found in the [online documentation](https://colrev-envi
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# Related software packages
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<!--
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<!--
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Tools for academic (Boolean) literature search queries:
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- *Yale MeSH Analyzer*: Organizes MeSH terms (keywords) for selected papers in a table for manual search query construction, [link](https://mesh.med.yale.edu/) [@GrossettaNardiniWang2023]
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TODO:
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https://ielab.io/searchrefiner/
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https://github.com/netgen/query-translator
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https://github.com/netgen/query-translator
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https://guides.library.cornell.edu/evidence-synthesis/translate
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- Galach!?
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@@ -329,7 +331,7 @@ Table: Overview of related tools
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-->
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Table 1 provides an overview of related software packages and a comparison with *search-query*.
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The leading query translators, *Polyglot search* and *Litsonar*, are proprietary and delivered through websites, i.e., without integration capabilities.
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The leading query translators, *Polyglot search* and *Litsonar*, are proprietary and delivered through websites, i.e., without integration capabilities.
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<!-- Litsonar: no parser -->
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*Polyglot search* supports a more comprehensive selection of databases (15) and initial validation hints [@ClarkGlasziouDelMarEtAl2020a].
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*Litsonar* supports seven databases, but does not offer parsers [@SturmSunyaev2019].
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\centering
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\begin{tabular}{lllccccccc}
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Software package
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& Setup
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& License
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& \rotatebox{80}{Load}
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& Setup
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& License
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& \rotatebox{80}{Load}
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& \rotatebox{80}{Save}
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& \rotatebox{80}{Lint}
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& \rotatebox{80}{Translate}
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& \rotatebox{80}{Lint}
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& \rotatebox{80}{Translate}
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& \rotatebox{80}{Improve}
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& \rotatebox{80}{Automate}
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\\
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The query parsers were tested with a comprehensive selection of peer-reviewed queries from *[searchRxiv](https://www.cabidigitallibrary.org/journal/searchrxiv)* [@White2024].
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Testing showed that a significant number of queries still contained errors after passing the peer-review process, further highlighting the need for linters like *search-query*.
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Given that *search-query* is designed for programmatic access, it can serve as a basis for query improvement and can be integrated into existing tool pipelines [@BellerClarkTsafnatEtAl2018].
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There is no tool supporting programmatic access (integration with other tools).

paper.pdf

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