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Minimal snakemake profile for biowulf cluster
Clinical Whole Genome and Exome Sequencing Pipeline
A template repository for Snakemake pipepline(s) and a python command-line toolkit.
BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy visualization of commonly used DNA-seq capture based methods.
AnaLysis routines for ePigenomicS data - 🏫 Bioconductor project
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
The ~/.vim directory that we share at work
The START App: R Shiny Transcriptome Analysis Resource Tool
Shiny apps for NGS etc based on reusable components created using Shiny modules
An interactive explorer for single-cell transcriptomics data
Combination matrix axis for 'ggplot2' to create 'UpSet' plots
A small collection of useful tutorials and links
Autogenerate templates for Snakemake rules and R scripts
Command-line tool for the visualization of splicing events across multiple samples
karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
An 8 page guide to starting with R - Tidyverse Edition
An R package for RNA-seq DGE downstream automation and clustering analysis
Dynamic Venn diagrams for differential gene expression
An interactive web-tool for RNA-seq analysis
App for hosting gene expression/ontology data with Shiny
An R-focused pipeline toolkit for reproducibility and high-performance computing
example singularity definition files and demos