Package index • evanverse

📦 Package Management

Functions for installing, checking, and managing R packages from multiple sources (CRAN, GitHub, Bioconductor). Essential tools for reproducible analysis environments.

check_pkg(): check_pkg(): Check if packages are installed and optionally install them

inst_pkg(): Install R Packages from Multiple Sources

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

pkg_version(): pkg_version: Check Installed and Latest Versions of R Packages

pkg_functions(): pkg_functions: List exported functions from a package

set_mirror(): Set CRAN/Bioconductor Mirrors

📊 Visualization & Plotting

High-level plotting functions with sensible defaults for common chart types and publication-ready visualizations. Create professional plots with minimal code.

plot_venn(): Draw Venn Diagrams (2-4 sets, classic or gradient style)

plot_forest(): Draw a forest plot using forestploter with publication-quality styling

plot_bar(): Bar plot with optional fill grouping, sorting, and directional layout

plot_pie(): Plot a Clean Pie Chart with Optional Inner Labels

plot_density(): plot_density: Univariate Density Plot (Fill Group, Black Outline)

🎨 Color Palettes & Management

Bioinformatics-focused color palette system with creation, management, and visualization tools. Build consistent, accessible color schemes for your projects.

get_palette(): Get Palette: Load Color Palette from RDS

list_palettes(): list_palettes(): List All Color Palettes from RDS

create_palette(): create_palette(): Save Custom Color Palettes as JSON

preview_palette(): Preview Palette: Visualize a Palette from RDS

bio_palette_gallery(): bio_palette_gallery(): Visualize All Palettes in a Gallery View

compile_palettes(): compile_palettes(): Compile JSON palettes into RDS

remove_palette(): Remove a Saved Palette JSON

hex2rgb(): Convert HEX color(s) to RGB numeric components

rgb2hex(): Convert RGB values to HEX color codes

💾 File & Data I/O

Flexible file reading/writing functions with enhanced error handling, progress reporting, and format detection. Handle various data formats with robust error recovery.

read_table_flex(): Flexible and fast table reader using data.table::fread

read_excel_flex(): Flexible Excel reader

write_xlsx_flex(): Flexible Excel writer

download_url(): download_url(): Download File from URL

download_batch(): download_batch(): Batch download files using multi_download (parallel with curl)

download_geo_data(): Download GEO Data Resources

file_info(): file_info: Summarise file information

file_tree(): file_tree: Print and Log Directory Tree Structure

get_ext(): get_ext: Extract File Extension(s)

view(): Quick interactive table viewer (reactable)

🧬 Bioinformatics Utilities

Specialized functions for bioinformatics workflows including gene ID conversion and gene set analysis. Essential tools for genomic data processing and analysis.

convert_gene_id(): convert_gene_id(): Convert gene identifiers using a reference table

download_gene_ref(): Download gene annotation reference table from Ensembl

gmt2df(): gmt2df: Convert GMT File to Long-format Data Frame

gmt2list(): gmt2list: Convert GMT File to Named List

🔄 Data Processing & Transformation

Functions for data manipulation, column mapping, and handling missing or void values. Clean and transform data with comprehensive void value handling.

df2list(): Convert Data Frame to Named List by Grouping

map_column(): map_column(): Map values in a column using named vector or list

is_void(): is_void(): Check for Null / NA / Blank ("") Values

any_void(): any_void(): Check if Any Value is Void (NA / NULL / "")

drop_void(): drop_void: Remove Void Values from a Vector or List

replace_void(): Replace void values (NA / NULL / "")

cols_with_void(): cols_with_void(): Detect Columns Containing Void Values

rows_with_void(): rows_with_void: Detect rows containing void values (NA / NULL / "")

⚡ Operators & Logic

Custom infix operators and logical utility functions for expressive and readable code. Enhance R syntax with powerful shortcuts and combinatorial tools.

`%p%`: %p%: paste two strings with a single space

`%is%`: Strict identity comparison with diagnostics

`%nin%`: %nin%: Not-in operator (negation of %in%)

`%map%`: %map%: Case-insensitive mapping returning named vector

`%match%`: %match%: Case-insensitive match returning indices

combine_logic(): combine_logic: Combine multiple logical vectors with a logical operator

comb(): comb: Calculate Number of Combinations C(n, k)

perm(): Calculate Number of Permutations A(n, k)

🛠️ Workflow & Development Tools

Helper functions for development workflow, timing, and safe code execution. Streamline your development process with productivity-enhancing utilities.

with_timer(): Wrap a function to measure and display execution time

remind(): Show usage tips for common R commands

safe_execute(): Safely Execute an Expression

📊 Example Datasets

Sample datasets included with evanverse for testing and demonstration purposes. Useful for learning functions and exploring package capabilities.

df_forest_test: Test Dataset for Forest Plots

trial: Clinical Trial Dataset