Framework for sensitive DE testing (using neighbourhoods)

RStudio Server in a Singularity container

nextflow ATACseq pipeline for GG02

Deep probabilistic analysis of single-cell and spatial omics data

nextflow RNAseq pipeline for GG02

The statistical language R compiled to WebAssembly via Emscripten, for use in web browsers and Node.

A curated collection of Nextflow implementation patterns

Interpretation of cell states using reference single-cell maps

argon dashboard template

GitHub Actions for the R community

A minimalistic router for your Shiny apps.

Assertive programming for R analysis pipelines

Microsoft's Fluent UI for Shiny apps

An interactive explorer for single-cell transcriptomics data

Benchmarking analysis of data integration tools

A toolkit for QC and visualization of ATAC-seq results.

R package implementation of Milo for testing for differential abundance in KNN graphs

A Shiny web app for visualizing genomic data from brain tumors in 3D.

Peer-to-peer hypermedia protocol

A command line interface for interacting with the Box API.

Nextflow training material for introductory tutorial

Portable WDL workflows for IDseq production pipelines

Kraken output generates a report for each datasets, this script takes these individual output and combines it to one file, where each column is number of reads that were rooted to this taxon (colum…

Lecture notes for EC 607

ChIP-seq analysis notes from Ming Tang

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Methods to compute Local Inverse Simpson's Index (LISI)