update_pkg

A unified function to update R packages by source. Supports full updates,
source-specific updates, or targeted package updates. Automatically sets mirrors
(Tsinghua CRAN, Tsinghua Bioconductor) and handles version compatibility checks.
Ensures Bioconductor installations specify the correct version to avoid mismatches.

A comprehensive collection of utility functions for data analysis
and visualization in R. The package provides 55+ functions for data
manipulation, file handling, color palette management, bioinformatics
workflows, plotting, and package management. Features include void value
handling, custom infix operators, flexible file I/O, and publication-ready
visualizations with sensible defaults. Implementation follows tidyverse
principles (Wickham et al. (2019) <doi:10.21105/joss.01686>) and incorporates
best practices from the R community.

Evan Zhou

evanverse

Utility Functions for Data Analysis and Visualization

update_pkg function

<dl><dt>pkg</dt>
<dd>Character vector. Name(s) of package(s) to update. For GitHub, use <code>"user/repo"</code> format.
Only required when <code>source</code> is specified.</dd>
<dt>source</dt>
<dd>Character. The source of the package(s): <code>"CRAN"</code>, <code>"GitHub"</code>, or <code>"Bioconductor"</code>.
Optional if updating all installed CRAN and Bioconductor packages.</dd></dl>

Arguments

Update R Packages from CRAN, GitHub, or Bioconductor — update_pkg

<dl>

<dt>pkg</dt>
<dd>Character vector. Name(s) of package(s) to update. For GitHub, use <code>"user/repo"</code> format.
Only required when <code>source</code> is specified.</dd>


<dt>source</dt>
<dd>Character. The source of the package(s): <code>"CRAN"</code>, <code>"GitHub"</code>, or <code>"Bioconductor"</code>.
Optional if updating all installed CRAN and Bioconductor packages.</dd>

</dl>

update_pkg: Update R Packages from CRAN, GitHub, or Bioconductor

Description

Usage

Value

Arguments