software.qmd

---
title: "Scientific Software"
description: "R packages, Shiny applications, and scientific tools"
format: html
execute:
  echo: false
  warning: false
  message: false
---

```{r}
#| label: software-metrics
#| echo: false

source("_metrics.R")
bibl_display <- fmt_compact(metrics_cran_total("bibliometrix"))
```

<span class="eyebrow">Catalogue of open-source tools</span>

<p class="lede">Open-source scientific software I have authored or co-authored. Most packages are available on CRAN and GitHub.</p>

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">Bibliometrix</h3>
<div class="catalogue-entry__meta">R package · CRAN · `r bibl_display`+ installations</div>
A comprehensive toolbox for science mapping and bibliometric analysis. Supports the complete workflow: data import, descriptive analysis, network and conceptual mapping, and visualisation.<br>
→ <a href="https://www.bibliometrix.org" target="_blank">bibliometrix.org</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">Biblioshiny</h3>
<div class="catalogue-entry__meta">Shiny web-app · Interactive front-end for Bibliometrix</div>
A user-friendly Shiny interface for Bibliometrix, enabling researchers to perform advanced bibliometric and science-mapping analyses without writing code.
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">TALL — Text Analysis for All</h3>
<div class="catalogue-entry__meta">R/Shiny · Text mining · NLP</div>
A general-purpose application for text-data analysis, supporting topic modelling, frequency analysis, clustering, and content classification.<br>
→ <a href="https://github.com/massimoaria/tall" target="_blank">github.com/massimoaria/tall</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">E2Tree</h3>
<div class="catalogue-entry__meta">R package · Explainable ML</div>
An explainable machine-learning approach based on ensemble trees. Generates interpretable models from complex data, with visual exploration of decision rules.<br>
→ <a href="https://github.com/massimoaria/e2tree" target="_blank">github.com/massimoaria/e2tree</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">DimensionsR</h3>
<div class="catalogue-entry__meta">R package · API client</div>
Programmatic access to the Dimensions API — publications, grants, clinical trials, and patents.<br>
→ <a href="https://github.com/massimoaria/dimensionsR" target="_blank">github.com/massimoaria/dimensionsR</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">PubmedR</h3>
<div class="catalogue-entry__meta">R package · API client · Medical literature</div>
An R interface to the PubMed API for searching, downloading, and analysing biomedical literature metadata — useful for systematic reviews and medical informatics.<br>
→ <a href="https://github.com/massimoaria/pubmedR" target="_blank">github.com/massimoaria/pubmedR</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">contentanalysis</h3>
<div class="catalogue-entry__meta">R package · Scientific PDF analysis</div>
Tools for extracting and analysing scientific content from PDFs, including citation extraction and reference matching.<br>
→ <a href="https://github.com/massimoaria/contentanalysis" target="_blank">github.com/massimoaria/contentanalysis</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">openalexR</h3>
<div class="catalogue-entry__meta">R package · ROpenSci · API client</div>
An R client for the OpenAlex API, providing access to open bibliographic metadata for scholarly publications, authors, institutions, and citations.<br>
→ <a href="https://docs.ropensci.org/openalexR/" target="_blank">docs.ropensci.org/openalexR</a>
:::

::: {.catalogue-entry}
<h3 class="catalogue-entry__title">PLS-SEM Matlab Toolbox</h3>
<div class="catalogue-entry__meta">Matlab / Octave · Structural equation modelling</div>
A Matlab / Octave package for Partial Least Squares Structural Equation Models.<br>
→ <a href="https://github.com/massimoaria/PLS-SEM" target="_blank">github.com/massimoaria/PLS-SEM</a>
:::