An R-focused pipeline toolkit for reproducibility and high-performance computing

Function-oriented Make-like declarative workflows for R

A repository for setting up a RNAseq workflow

zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs

Archetypes for targets and pipelines

Short course on the targets R package

Robust and efficient workflows using a simple language agnostic approach

Targets extensions for geospatial data

integrated RNA-seq Analysis Pipeline

A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data

Transcriptomics Visualization R package.

Example Shiny app containing a targets pipeline.

Pipelines you can compute on

Machine learning pipelines for R.

A minimal example data analysis project with the targets R package

Example workflows for the drake R package

Multi-sample somatic variant caller

A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices resulting from next-generation sequencing (NGS) experiments (e.g., RNA-seq, ATAC-seq, ChIP-seq, Methyl-seq, miRNA-seq,...) including confounding factor analysis and diagnostic visualizations.

De novo annotation of young retrotransposons

Get started with the {targets} R package in four minutes