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ddot

Toolkit for constructing, analyzing, and visualizing data-driven ontologies

decode

A prediction model for differential gene expression (DE) based on genome-wide regulatory interactions

degust

An interactive web-tool for RNA-seq analysis

diffcorr

:exclamation: This is a read-only mirror of the CRAN R package repository. DiffCorr — Analyzing and Visualizing Differential Correlation Networks in Biological Data

doxygen

Official doxygen git repository

dplyr

dplyr: A grammar of data manipulation

dplyr-tutorial

Tutorials for the dplyr package in R

enrichmentmapapp

Enrichment Map Cytoscape App

epic

This is the public repository for the EPIC tool.

fgsea

Fast Gene Set Enrichment Analysis

galaxy-hub

Galaxy Community Hub

galaxy-ml

Make machine learning simpler with Galaxy

galaxy-rna-workbench

Galaxy RNA workbench

galaxykickstart

Ansible playbooks for Galaxy Server deployment

garnet

geoquery

The bridge between the NCBI Gene Expression Omnibus and Bioconductor

ggplot2

An implementation of the Grammar of Graphics in R

ggplot2-book

The ggplot2 book

ggrepel

:round_pushpin: Repel overlapping text labels away from each other.

gmqn

Gaussian Mixture Quantile Normalization (GMQN)

gsea-incontext

Gene Set Enrichment Analysis in Python

gsea-incontext_explorer

Shiny app for gene set enrichment analysis using GSEA-InContext

guidock

hands-on-programming-with-r

Code and exercises of the book “Hands-On Programming with R: Write Your Own Functions and Simulations".

hiview

HiView: the universal viewer for hierarchical data

hopr

This is the development site for Hands-On Programming with R, a book that teaches how to program in R, with hands-on examples. Read the book at https://rstudio-education.github.io/hopr.

igraph

Library for the analysis of networks

immport-galaxy

joint-analysis-de-gene

kallisto-nf-reproduce

Experiment illustrating how Nextflow can make biological pipelines reproducible