Repositories list

• remo-manuscript

  Public
  Code to reproduce analyses shown in the REMO manuscript

  R

  •0•0•0•0•Updated Dec 11, 2025Dec 11, 2025

• signac

  Public
  R toolkit for the analysis of single-cell chromatin data

  bioinformaticssingle-cellatac

  R

  •

  Other

  •102•398•17•2•Updated Dec 11, 2025Dec 11, 2025

• REMO

  Public
  Regulatory element modules

  R

  •0•0•0•0•Updated Dec 10, 2025Dec 10, 2025

• human-chromatin-atlas

  Public
  Organization of published human adult and fetal scATAC-seq data

  Shell

  •0•0•0•0•Updated Dec 6, 2025Dec 6, 2025

• REMO.v1.GRCh38

  Public
  R

  •0•0•0•0•Updated Dec 5, 2025Dec 5, 2025

• fragtk

  Public
  Fragment file toolkit

  Rust

  •

  MIT License

  •0•4•0•0•Updated Oct 21, 2025Oct 21, 2025

• spars

  Public

  stuart-lab/spars’s past year of commit activity
  Disk-based sparse matrix stats

  Rust

  •

  MIT License

  •0•6•0•0•Updated Aug 27, 2025Aug 27, 2025

• fragtk-benchmark

  Public
  Benchmarking scATAC-seq count matrix quantification methods

  Python

  •0•0•0•0•Updated May 3, 2025May 3, 2025

• cellranger-workflow

  Public

  stuart-lab/cellranger-workflow’s past year of commit activity
  Python

  •0•2•0•0•Updated Dec 30, 2024Dec 30, 2024

• aws-setup

  Public
  AWS setup information and scripts

  Shell

  •0•0•0•0•Updated Dec 19, 2023Dec 19, 2023

• nanobody

  Public
  Nanobody-tethered transposition followed by sequencing

  R

  •3•5•0•0•Updated Dec 20, 2022Dec 20, 2022

• signac-paper

  Public
  Code to reproduce analyses shown in the Signac paper

  R

  •3•3•0•0•Updated Nov 1, 2021Nov 1, 2021