\[!\[Check 🛠\](https://github.com/insightsengineering/hermes/actions/workflows/check.yaml/badge.svg)\](https://github.com/insightsengineering/hermes/actions/workflows/check.yaml) \[!\[Docs 📚\](https://github.com/insightsengineering/hermes/actions/workflows/docs.yaml/badge.svg)\](https://insightsengineering.github.io/hermes/) \[!\[Code Coverage 📔\](https://raw.githubusercontent.com/insightsengineering/hermes/\_xml\_coverage\_reports/data/main/badge.svg)\](https://raw.githubusercontent.com/insightsengineering/hermes/\_xml\_coverage\_reports/data/main/coverage.xml) !\[GitHub forks\](https://img.shields.io/github/forks/insightsengineering/hermes?style=social) !\[GitHub repo stars\](https://img.shields.io/github/stars/insightsengineering/hermes?style=social) !\[GitHub commit activity\](https://img.shields.io/github/commit-activity/m/insightsengineering/hermes) !\[GitHub contributors\](https://img.shields.io/github/contributors/insightsengineering/hermes) !\[GitHub last commit\](https://img.shields.io/github/last-commit/insightsengineering/hermes) !\[GitHub pull requests\](https://img.shields.io/github/issues-pr/insightsengineering/hermes) !\[GitHub repo size\](https://img.shields.io/github/repo-size/insightsengineering/hermes) !\[GitHub language count\](https://img.shields.io/github/languages/count/insightsengineering/hermes) \[!\[Project Status: Active – The project has reached a stable, usable state and is being actively developed.\](https://www.repostatus.org/badges/latest/active.svg)\](https://www.repostatus.org/#active) \[!\[Current Version\](https://img.shields.io/github/r-package/v/insightsengineering/hermes/main?color=purple&label=package%20version)\](https://github.com/insightsengineering/hermes/tree/main) \[!\[Open Issues\](https://img.shields.io/github/issues-raw/insightsengineering/hermes?color=red&label=open%20issues)\](https://github.com/insightsengineering/hermes/issues?q=is%3Aissue+is%3Aopen+sort%3Aupdated-desc) > \`hermes\` facilitates preprocessing, analyzing, and reporting of > RNA-seq data. - Imports \`RNAseq\` count data into the \`hermes\` ready format. - Annotates gene information automatically from a central database (e.g. \`BioMart\`). - Adds quality control (QC) flags to genes and samples. - Filters the data set. - Normalizes the counts. - Quickly produces descriptive plots. - Performs principal components analysis. - Produces a templated QC report. - Performs differential expression analysis. ## Installation ### \`BioConductor\` You can install the current release from \`BioConductor\` with: \`\`\` r if (!require("BiocManager")) { install.packages("BiocManager") } BiocManager::install("hermes") \`\`\` ### GitHub You can install the development version from GitHub with: \`\`\` r if (!require("devtools")) { install.packages("devtools") } devtools::install\_github("insightsengineering/hermes") \`\`\` ## Getting Started You can get started by reading the introduction vignette: \`\`\` r library(hermes) vignette("introduction", package = "hermes") \`\`\`
