evanverse

A Modern R Toolkit for Data Science & Bioinformatics

📚 Documentation • 🚀 Getting Started • 💬 Issues • 🤝 Contributing

Languages: English | 简体中文

✨ Overview

evanverse is a comprehensive utility package designed to streamline your R workflows. Built by Evan Zhou, it combines 60+ carefully crafted functions for data analysis, visualization, statistical testing, and bioinformatics into a single, coherent toolkit.

Why evanverse?

# 🎯 Intuitive operators
"Hello" %p% "World"                    # → "Hello World"

# 🎨 Beautiful visualizations
plot_venn(list(A = 1:5, B = 3:8))     # Instant Venn diagrams

# 📦 Smart package management
inst_pkg("dplyr", source = "CRAN")     # Multi-source installation

# 🧬 Bioinformatics made easy
convert_gene_id(genes, from = "SYMBOL", to = "ENSEMBL")

🚀 Installation

Stable Release (CRAN)

install.packages("evanverse")

Development Version

# install.packages("devtools")
devtools::install_github("evanbio/evanverse")

Requirements: R ≥ 4.1.0

🎯 Core Features

📦 Package Management Multi-source installation (CRAN, GitHub, Bioconductor) Version checking & updates Package function exploration Mirror configuration	🎨 Visualization Ready-to-use plotting functions Bioinformatics color palettes Venn diagrams, forest plots Bar, pie, density plots
🧬 Bioinformatics Gene ID conversion GMT file handling GEO data downloading Reference data management	🔧 Data Processing Flexible file I/O Column mapping utilities Void value handling Data transformations
🧮 Custom Operators `%p%` - String concatenation `%is%` - Identity comparison `%nin%` - Not in `%map%`, `%match%` - Mapping tools	📊 Statistical Analysis t-test, ANOVA, chi-square, correlation Power analysis & sample size calculation Publication-ready visualizations Automatic assumption checking
⚙️ Workflow Tools Timer wrappers Safe execution Reminder system Interactive viewing	🎯 ggplot2 Integration Custom color/fill scales Seamless palette integration Publication-quality theming

💡 Quick Examples

String Operations

library(evanverse)

# Concatenate with %p%
first_name %p% " " %p% last_name

# Check if NOT in set
5 %nin% c(1, 2, 3, 4)  # TRUE

Color Palettes

# List available palettes
list_palettes()

# Get a palette
colors <- get_palette("celltype", n = 5)

# Preview palette
preview_palette("celltype")

File Operations

# Flexible table reading
data <- read_table_flex("data.csv")

# Directory tree visualization
file_tree(".", max_depth = 2)

Bioinformatics Workflows

# Convert gene IDs
genes <- c("TP53", "BRCA1", "EGFR")
ensembl_ids <- convert_gene_id(genes, from = "SYMBOL", to = "ENSEMBL")

# Parse GMT files
pathways <- gmt2list("pathway.gmt")

Package Management

# Install from multiple sources
inst_pkg(c("dplyr", "ggplot2"), source = "CRAN")
inst_pkg("limma", source = "Bioconductor")
inst_pkg("user/repo", source = "GitHub")

# Check versions
pkg_version("evanverse")

📖 Function Categories

📦 Package Management (6 functions)

check_pkg() - Check if packages are installed
inst_pkg() - Install packages from multiple sources
update_pkg() - Update installed packages
pkg_version() - Get package version
pkg_functions() - List package functions
set_mirror() - Configure CRAN mirror

🎨 Visualization & Plotting (5 functions)

plot_venn() - Venn diagrams
plot_forest() - Forest plots (with advanced customization)
plot_bar() - Bar charts
plot_pie() - Pie charts
plot_density() - Density plots

📊 Statistical Analysis (6 functions)

quick_ttest() - Intelligent t-test with assumption checking
quick_anova() - One-way ANOVA with post-hoc tests
quick_chisq() - Chi-square test with visualization
quick_cor() - Correlation analysis with heatmap
stat_power() - Statistical power analysis
stat_samplesize() - Sample size calculation

🎯 ggplot2 Integration (3 functions)

scale_color_evanverse() - Color scale for ggplot2
scale_fill_evanverse() - Fill scale for ggplot2
scale_colour_evanverse() - Alias for British spelling

🌈 Color Palettes (9 functions)

get_palette() - Retrieve color palette
list_palettes() - List available palettes
create_palette() - Create custom palette
preview_palette() - Preview palette colors
bio_palette_gallery() - Browse bio palettes
compile_palettes() - Compile palette data
remove_palette() - Remove palette
hex2rgb() - Convert hex to RGB
rgb2hex() - Convert RGB to hex

📁 File & Data I/O (10 functions)

read_table_flex() - Flexible table reading
read_excel_flex() - Flexible Excel reading
write_xlsx_flex() - Flexible Excel writing
download_url() - Download from URL
download_batch() - Batch downloads
download_geo_data() - Download GEO datasets
file_info() - File information
file_tree() - Directory tree
get_ext() - Get file extension
view() - Interactive data viewer

🧬 Bioinformatics (4 functions)

convert_gene_id() - Gene ID conversion
download_gene_ref() - Download gene references
gmt2df() - GMT to data frame
gmt2list() - GMT to list

🔧 Data Processing (10 functions)

df2list() - Data frame to list
map_column() - Map column values
is_void() - Check for void values
any_void() - Any void values
drop_void() - Remove void values
replace_void() - Replace void values
cols_with_void() - Columns with voids
rows_with_void() - Rows with voids

🧮 Operators & Logic (8 functions)

%p% - String concatenation operator
%is% - Identity comparison
%nin% - Not in operator
%map% - Mapping operator
%match% - Match operator
combine_logic() - Combine logical vectors
comb() - Combinations
perm() - Permutations

⚙️ Workflow Tools (3 functions)

with_timer() - Execute with timing
remind() - Set reminders
safe_execute() - Safe function execution

📚 Documentation

Complete documentation with examples and vignettes:

👉 https://evanbio.github.io/evanverse/

🤝 Contributing

We welcome contributions! Please see our Contributing Guide for details.

📜 License

See LICENSE.md for details.

📊 Project Status

✅ CRAN Published - Version 0.4.0
✅ Stable Lifecycle - Production ready
✅ Full Test Coverage - Comprehensive test suite
✅ Active Maintenance - Regular updates

Made with ❤️ by Evan Zhou

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Name		Name	Last commit message	Last commit date
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.github		.github
R		R
data-raw		data-raw
data		data
docs		docs
inst		inst
man		man
pkgdown/favicon		pkgdown/favicon
tests		tests
vignettes		vignettes
.gitignore		.gitignore
CONTRIBUTING.md		CONTRIBUTING.md
DESCRIPTION		DESCRIPTION
LICENSE		LICENSE
LICENSE.md		LICENSE.md
NAMESPACE		NAMESPACE
NEWS.md		NEWS.md
README.md		README.md
README_zh.md		README_zh.md
_pkgdown.yml		_pkgdown.yml
codecov.yml		codecov.yml
cran-comments.md		cran-comments.md
index.md		index.md

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evanverse

A Modern R Toolkit for Data Science & Bioinformatics

✨ Overview

Why evanverse?

🚀 Installation

Stable Release (CRAN)

Development Version

🎯 Core Features

📦 Package Management

🎨 Visualization

🧬 Bioinformatics

🔧 Data Processing

🧮 Custom Operators

📊 Statistical Analysis

⚙️ Workflow Tools

🎯 ggplot2 Integration

💡 Quick Examples

String Operations

Color Palettes

File Operations

Bioinformatics Workflows

Package Management

📖 Function Categories

📚 Documentation

🤝 Contributing

📜 License

📊 Project Status

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